content large_stringlengths 0 6.46M | path large_stringlengths 3 331 | license_type large_stringclasses 2
values | repo_name large_stringlengths 5 125 | language large_stringclasses 1
value | is_vendor bool 2
classes | is_generated bool 2
classes | length_bytes int64 4 6.46M | extension large_stringclasses 75
values | text stringlengths 0 6.46M |
|---|---|---|---|---|---|---|---|---|---|
install.packages("readxl")
install.packages("devtools")
install.packages("dpylr")
install.packages("tidyverse")
install.packages("ggplot2")
install.packages("kernlab")
install.packages('caret')
library("tidyverse")
library("caret")
library("readxl")
library("dplyr")
library("ggplot2")
library("tools")
library("kernlab"... | /UCI Cardiotocography Prediction.R | no_license | madisontagg/Cardiotocography-Fetal-State-Prediction | R | false | false | 5,087 | r | install.packages("readxl")
install.packages("devtools")
install.packages("dpylr")
install.packages("tidyverse")
install.packages("ggplot2")
install.packages("kernlab")
install.packages('caret')
library("tidyverse")
library("caret")
library("readxl")
library("dplyr")
library("ggplot2")
library("tools")
library("kernlab"... |
c DCNF-Autarky [version 0.0.1].
c Copyright (c) 2018-2019 Swansea University.
c
c Input Clause Count: 1516039
c Performing E1-Autarky iteration.
c Remaining clauses count after E-Reduction: 1516039
c
c Input Parameter (command line, file):
c input filename QBFLIB/Miller-Marin/fpu/fpu-10Xh-error01-nonuniform-depth... | /code/dcnf-ankit-optimized/Results/QBFLIB-2018/E1/Experiments/Miller-Marin/fpu/fpu-10Xh-error01-nonuniform-depth-21/fpu-10Xh-error01-nonuniform-depth-21.R | no_license | arey0pushpa/dcnf-autarky | R | false | false | 693 | r | c DCNF-Autarky [version 0.0.1].
c Copyright (c) 2018-2019 Swansea University.
c
c Input Clause Count: 1516039
c Performing E1-Autarky iteration.
c Remaining clauses count after E-Reduction: 1516039
c
c Input Parameter (command line, file):
c input filename QBFLIB/Miller-Marin/fpu/fpu-10Xh-error01-nonuniform-depth... |
#Part1
suppressPackageStartupMessages(library(ggplot2))
suppressPackageStartupMessages(library(plyr))
suppressPackageStartupMessages(library(dplyr))
suppressPackageStartupMessages(library(sirt))
args = commandArgs(trailingOnly=TRUE)
# test if there is at least one argument: if not, return an error
if (length(args)==0) ... | /AIDD/ExToolset/scripts/guttman.R | no_license | RNAdetective/AIDD | R | false | false | 1,016 | r | #Part1
suppressPackageStartupMessages(library(ggplot2))
suppressPackageStartupMessages(library(plyr))
suppressPackageStartupMessages(library(dplyr))
suppressPackageStartupMessages(library(sirt))
args = commandArgs(trailingOnly=TRUE)
# test if there is at least one argument: if not, return an error
if (length(args)==0) ... |
## Extract results of interest, write TAF output tables
## Before: data/
## summary.csv
## After: output/
## sag_upload.xml,
## sag_info.csv,
## sag_fishdata.csv
library(icesTAF)
library(icesSAG)
mkdir("output")
# read in summary data
summary <- read.taf("data/summary_catch.csv"... | /output.R | no_license | ices-taf/2019_san.sa.6 | R | false | false | 864 | r | ## Extract results of interest, write TAF output tables
## Before: data/
## summary.csv
## After: output/
## sag_upload.xml,
## sag_info.csv,
## sag_fishdata.csv
library(icesTAF)
library(icesSAG)
mkdir("output")
# read in summary data
summary <- read.taf("data/summary_catch.csv"... |
RiskControl=function(status){
#cache space
memory.limit(10240000)
today<-Sys.Date()
#library#
library(DBI)
library(RMySQL)
library(lubridate)
library(reshape)
#get data#
#connet MySQL
con = dbConnect(
dbDriver("MySQL"),
#user = username,
#password= password,
... | /src/main/resources/RiskControl.R | permissive | shimaomao/fpd | R | false | false | 16,516 | r | RiskControl=function(status){
#cache space
memory.limit(10240000)
today<-Sys.Date()
#library#
library(DBI)
library(RMySQL)
library(lubridate)
library(reshape)
#get data#
#connet MySQL
con = dbConnect(
dbDriver("MySQL"),
#user = username,
#password= password,
... |
vehicbaltnei<-vehicnei[vehicnei$fips==24510,]
vehicbaltnei$city<-"Baltimore City"
vehicLAnei<-vehicnei[vehicnei$fips=="06037",]
vehicLAnei$city<-"Los Angeles County"
bothNEI<-rbind(vehiclesBaltimoreNEI,vehiclesLANEI)
library(ggplot2)
plot6<-ggplot(bothNEI,aes(x=factor(year),y=(Emissions/1000),fill=city)) +
geom_bar(a... | /plot6.R | no_license | thayanlima/ExploratoryDataCourseProject2 | R | false | false | 582 | r | vehicbaltnei<-vehicnei[vehicnei$fips==24510,]
vehicbaltnei$city<-"Baltimore City"
vehicLAnei<-vehicnei[vehicnei$fips=="06037",]
vehicLAnei$city<-"Los Angeles County"
bothNEI<-rbind(vehiclesBaltimoreNEI,vehiclesLANEI)
library(ggplot2)
plot6<-ggplot(bothNEI,aes(x=factor(year),y=(Emissions/1000),fill=city)) +
geom_bar(a... |
library(shiny)
# Load the data on school usage and teacher logins
# into a dataframe, "schools".
load("./Data/schools.RData")
# Calculate a linear model for predicting "hours" from "logins"
fit<-lm(hours ~ logins, data=schools)
shinyServer(function(input, output) {
# plot hours against logins
... | /server.R | no_license | iargent/dataprodass | R | false | false | 1,733 | r | library(shiny)
# Load the data on school usage and teacher logins
# into a dataframe, "schools".
load("./Data/schools.RData")
# Calculate a linear model for predicting "hours" from "logins"
fit<-lm(hours ~ logins, data=schools)
shinyServer(function(input, output) {
# plot hours against logins
... |
########## Exemplo Recuperacao de Imagens ##########
## pacotes ##
library(tidyverse)
library(magrittr)
library(reticulate)
use_python('/usr/local/bin/python3.6')
library(keras)
library(Matrix)
library(NMF)
library(NNLM)
## carrega imagem ##
imagem <- image_load( path = '/home/vm-data-science/education/dados/scallet.... | /R_scripts/exemplo_recuperacao_imagem.R | no_license | netoalcides/education | R | false | false | 2,189 | r | ########## Exemplo Recuperacao de Imagens ##########
## pacotes ##
library(tidyverse)
library(magrittr)
library(reticulate)
use_python('/usr/local/bin/python3.6')
library(keras)
library(Matrix)
library(NMF)
library(NNLM)
## carrega imagem ##
imagem <- image_load( path = '/home/vm-data-science/education/dados/scallet.... |
#!/usr/bin/env Rscript
# Author: Eva Linehan
# Date: October 2018
# Desc: This script calculates heights of trees from a given .csv file and outputs
# the result in the following format; "InputFileName_treeheights.csv"
#clear environments
rm(list=ls())
# The height is calculated bu using the given distance of each t... | /Week3/Code/get_TreeHeight.R | no_license | EvalImperialforces/CMEECourseWork | R | false | false | 1,637 | r | #!/usr/bin/env Rscript
# Author: Eva Linehan
# Date: October 2018
# Desc: This script calculates heights of trees from a given .csv file and outputs
# the result in the following format; "InputFileName_treeheights.csv"
#clear environments
rm(list=ls())
# The height is calculated bu using the given distance of each t... |
#Ryan Batt
#23 April 2011
#What is POM made of?
#Given POM, what is a consumer made of?
#The purpose of this script is first calculate the constituent components of Ward POM from the summer of 2010.
#Next, I will determine the composition of a consumer.
#I begin with the simplifying assumption that POM is made of terre... | /oldScripts/Cons_Mixture_Ward2010&2012_v0.2.0.R | no_license | rBatt/DarkenedLake | R | false | false | 35,554 | r | #Ryan Batt
#23 April 2011
#What is POM made of?
#Given POM, what is a consumer made of?
#The purpose of this script is first calculate the constituent components of Ward POM from the summer of 2010.
#Next, I will determine the composition of a consumer.
#I begin with the simplifying assumption that POM is made of terre... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/generics.R
\name{plotLocalScalingExp}
\alias{plotLocalScalingExp}
\title{Plot local scaling exponents}
\usage{
plotLocalScalingExp(x, ...)
}
\arguments{
\item{x}{An object containing all the information needed for the estimate of
the chaotic ... | /man/plotLocalScalingExp.Rd | no_license | constantino-garcia/nonlinearTseries | R | false | true | 667 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/generics.R
\name{plotLocalScalingExp}
\alias{plotLocalScalingExp}
\title{Plot local scaling exponents}
\usage{
plotLocalScalingExp(x, ...)
}
\arguments{
\item{x}{An object containing all the information needed for the estimate of
the chaotic ... |
#DATASETS dDO R
data('mtcars')
dim(mtcars)
fix(mtcars)
View(mtcars)
summary(mtcars)
help(mtcars)
#CARREGANDO DE UM XLS, XLSX
install.packages('gdata', dependencies = T)
install.packages('gtools', dependencies = T)
library('gdata')
#CAMINHO DE ONDE ESTA O ARQUIVO EXCEL
arquivo <- file.path('teste4.xlsx')
arq... | /aula02/entrada_arquivo2.R | no_license | yorae39/IA-COTI | R | false | false | 893 | r | #DATASETS dDO R
data('mtcars')
dim(mtcars)
fix(mtcars)
View(mtcars)
summary(mtcars)
help(mtcars)
#CARREGANDO DE UM XLS, XLSX
install.packages('gdata', dependencies = T)
install.packages('gtools', dependencies = T)
library('gdata')
#CAMINHO DE ONDE ESTA O ARQUIVO EXCEL
arquivo <- file.path('teste4.xlsx')
arq... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/link_function.R
\name{func_link}
\alias{func_link}
\title{Link functions}
\usage{
func_link(link)
}
\arguments{
\item{link}{the link function}
}
\value{
A list of functions subject to a link function
}
\description{
This function includes nec... | /man/func_link.Rd | no_license | YuqiTian35/multipledls | R | false | true | 369 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/link_function.R
\name{func_link}
\alias{func_link}
\title{Link functions}
\usage{
func_link(link)
}
\arguments{
\item{link}{the link function}
}
\value{
A list of functions subject to a link function
}
\description{
This function includes nec... |
options(repos<- c(CRAN="https://mirrors.tuna.tsinghua.edu.cn/CRAN/") )
options("BioC_mirror"<- "https://mirrors.ustc.edu.cn/bioc/")
install.packages(c("devtools","curl")) ##Installs devtools and the MCPcounter dependancy 'curl'
library(devtools)
install_github("ebecht/MCPcounter",ref="master", subdir="Source")
librar... | /MCPcounter.R | no_license | addisonli1988/2021.5.31 | R | false | false | 498 | r | options(repos<- c(CRAN="https://mirrors.tuna.tsinghua.edu.cn/CRAN/") )
options("BioC_mirror"<- "https://mirrors.ustc.edu.cn/bioc/")
install.packages(c("devtools","curl")) ##Installs devtools and the MCPcounter dependancy 'curl'
library(devtools)
install_github("ebecht/MCPcounter",ref="master", subdir="Source")
librar... |
library("dplyr")
library("ggplot2")
#colsToKeep = c("ST", "JWMNP", "JWTR", "WKHP", "WKW", "JWAP", "JWDP", "PWGTP")
#pusa <- fread("D:/CU/4249_Data/Project_1/ss13pusa.csv", select = colsToKeep)
#pusb <- fread("D:/CU/4249_Data/Project_1/ss13pusb.csv", select = colsToKeep)
#WorkData <- rbind(pusa, pusb)
#rm(pusa, ... | /lib/work.R | no_license | TZstatsADS/Spr2016-Proj1-Grp8-InteractiveGraphs | R | false | false | 1,921 | r | library("dplyr")
library("ggplot2")
#colsToKeep = c("ST", "JWMNP", "JWTR", "WKHP", "WKW", "JWAP", "JWDP", "PWGTP")
#pusa <- fread("D:/CU/4249_Data/Project_1/ss13pusa.csv", select = colsToKeep)
#pusb <- fread("D:/CU/4249_Data/Project_1/ss13pusb.csv", select = colsToKeep)
#WorkData <- rbind(pusa, pusb)
#rm(pusa, ... |
#' Annotator.annotate
#'
#' Annotate a data table/frame with additional fields.
#'
#' @param records The data table or data frame to annotate.
#' @param fields The fields to add.
#' @param include_errors Set to TRUE to include errors in the output (default: FALSE).
#' @param raw Set to TRUE to return the raw response (... | /R/annotation.R | no_license | stevekm/solvebio-r | R | false | false | 2,166 | r | #' Annotator.annotate
#'
#' Annotate a data table/frame with additional fields.
#'
#' @param records The data table or data frame to annotate.
#' @param fields The fields to add.
#' @param include_errors Set to TRUE to include errors in the output (default: FALSE).
#' @param raw Set to TRUE to return the raw response (... |
testlist <- list(x = structure(c(2.61830011167902e+122, 2.61823523897988e+122, 1.39804328609529e-76, 1.39804328609529e-76, 1.39804328609529e-76, 1.39804328609529e-76, 1.39804328609529e-76, 1.4119288904388e-76, 0, 0, 0, 0, 0, 0, 0), .Dim = c(5L, 3L)))
result <- do.call(borrowr:::matchesToCor,testlist)
str(result) | /borrowr/inst/testfiles/matchesToCor/libFuzzer_matchesToCor/matchesToCor_valgrind_files/1609957930-test.R | no_license | akhikolla/updated-only-Issues | R | false | false | 316 | r | testlist <- list(x = structure(c(2.61830011167902e+122, 2.61823523897988e+122, 1.39804328609529e-76, 1.39804328609529e-76, 1.39804328609529e-76, 1.39804328609529e-76, 1.39804328609529e-76, 1.4119288904388e-76, 0, 0, 0, 0, 0, 0, 0), .Dim = c(5L, 3L)))
result <- do.call(borrowr:::matchesToCor,testlist)
str(result) |
# exploratory data analytics
library(tidyverse)
library(echarts4r)
# load data
datacuaca_aus = readr::read_csv(file = "data/mentah/weather AUS.csv")
# Rangkuman umum -------------------------
## Mengetahui isi data
glimpse(datacuaca_aus)
summary(datacuaca_aus)
## Memvisualisasikan Distribusi -------------------
## v... | /script1/latihan hari 5a.R | no_license | eppofahmi/hujanetc | R | false | false | 581 | r | # exploratory data analytics
library(tidyverse)
library(echarts4r)
# load data
datacuaca_aus = readr::read_csv(file = "data/mentah/weather AUS.csv")
# Rangkuman umum -------------------------
## Mengetahui isi data
glimpse(datacuaca_aus)
summary(datacuaca_aus)
## Memvisualisasikan Distribusi -------------------
## v... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/codingSchemes_get_all.R
\name{codingSchemes_get_all}
\alias{codingSchemes_get_all}
\title{Convenience function to get a list of all available coding schemes}
\usage{
codingSchemes_get_all()
}
\value{
A list of all available coding sc... | /man/codingSchemes_get_all.Rd | no_license | cran/rock | R | false | true | 463 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/codingSchemes_get_all.R
\name{codingSchemes_get_all}
\alias{codingSchemes_get_all}
\title{Convenience function to get a list of all available coding schemes}
\usage{
codingSchemes_get_all()
}
\value{
A list of all available coding sc... |
args <- commandArgs(T)
profile.all <- read.table(args[1], head = T, check.names = F)
group <- read.table(args[2], head = F, check.names = F)
pvalue <- read.table(args[3], head = T, check.names = F)
enrich <- levels(pvalue[, ncol(pvalue)])
profile.a <- profile.all[as.vector(pvalue[which(pvalue[, ncol(pvalue)... | /bin/12.cazy/diff_plot.R | no_license | ms201420201029/real_metagenome_pipeline | R | false | false | 3,120 | r | args <- commandArgs(T)
profile.all <- read.table(args[1], head = T, check.names = F)
group <- read.table(args[2], head = F, check.names = F)
pvalue <- read.table(args[3], head = T, check.names = F)
enrich <- levels(pvalue[, ncol(pvalue)])
profile.a <- profile.all[as.vector(pvalue[which(pvalue[, ncol(pvalue)... |
testlist <- list(cost = structure(c(1.44888560957826e+135, 1.6249392498385e+65, 5.27956628994611e-134, 1.56839475268612e-251, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0), .Dim = c(5L, 5L)), flow = structure(c(3.80768289350145e+125, 8.58414828913381e+155, 3.37787969964034e+43, 2.83184518248624e-19... | /epiphy/inst/testfiles/costTotCPP/AFL_costTotCPP/costTotCPP_valgrind_files/1615926912-test.R | no_license | akhikolla/updatedatatype-list2 | R | false | false | 1,101 | r | testlist <- list(cost = structure(c(1.44888560957826e+135, 1.6249392498385e+65, 5.27956628994611e-134, 1.56839475268612e-251, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0), .Dim = c(5L, 5L)), flow = structure(c(3.80768289350145e+125, 8.58414828913381e+155, 3.37787969964034e+43, 2.83184518248624e-19... |
% Generated by roxygen2 (4.1.1): do not edit by hand
% Please edit documentation in R/MAGNAMWAR.R
\name{download_packages}
\alias{download_packages}
\title{Download Requried Packages}
\usage{
download_packages()
}
\description{
Automatically downloads all the required packages for full analysis
}
| /man/download_packages.Rd | no_license | chaston-lab/MAGNAMWAR | R | false | false | 299 | rd | % Generated by roxygen2 (4.1.1): do not edit by hand
% Please edit documentation in R/MAGNAMWAR.R
\name{download_packages}
\alias{download_packages}
\title{Download Requried Packages}
\usage{
download_packages()
}
\description{
Automatically downloads all the required packages for full analysis
}
|
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/getA.R
\name{getA}
\alias{getA}
\title{\code{applyFilters} - Extracts the "a" parameter from occupancy model outputs.}
\usage{
getA(
indata = "../data/model_runs/",
keep,
REGION_IN_Q = "a",
group_name = "",
combined_output = TRUE,
... | /man/getA.Rd | no_license | EllieDyer/wrappeR | R | false | true | 803 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/getA.R
\name{getA}
\alias{getA}
\title{\code{applyFilters} - Extracts the "a" parameter from occupancy model outputs.}
\usage{
getA(
indata = "../data/model_runs/",
keep,
REGION_IN_Q = "a",
group_name = "",
combined_output = TRUE,
... |
# Part of the varbvs package, https://github.com/pcarbo/varbvs
#
# Copyright (C) 2012-2017, Peter Carbonetto
#
# This program is free software: you can redistribute it under the
# terms of the GNU General Public License; either version 3 of the
# License, or (at your option) any later version.
#
# This program ... | /code/tgen_probitpve.R | no_license | vivid-/T-GEN | R | false | false | 2,118 | r | # Part of the varbvs package, https://github.com/pcarbo/varbvs
#
# Copyright (C) 2012-2017, Peter Carbonetto
#
# This program is free software: you can redistribute it under the
# terms of the GNU General Public License; either version 3 of the
# License, or (at your option) any later version.
#
# This program ... |
# Unit 4 - "Judge, Jury, and Classifier" Lecture
# VIDEO 4
# Read in the data
stevens = read.csv("stevens.csv")
str(stevens)
# Split the data
library(caTools)
set.seed(3000)
spl = sample.split(stevens$Reverse, SplitRatio = 0.7)
Train = subset(stevens, spl==TRUE)
Test = subset(stevens, spl==FALSE)
# Install rpart l... | /Unit4_SupremeCourt.R | no_license | marlonglopes/RTests | R | false | false | 2,722 | r | # Unit 4 - "Judge, Jury, and Classifier" Lecture
# VIDEO 4
# Read in the data
stevens = read.csv("stevens.csv")
str(stevens)
# Split the data
library(caTools)
set.seed(3000)
spl = sample.split(stevens$Reverse, SplitRatio = 0.7)
Train = subset(stevens, spl==TRUE)
Test = subset(stevens, spl==FALSE)
# Install rpart l... |
library(shiny)
clicksUI <- function(id) {
ns <- shiny::NS(id)
div(id = "module_content",
style = "background-color: #c9d8f0; width: 200px; padding: 5px",
actionButton(ns('local_counter'), "I'm inside the module"),
textOutput(ns("local_clicks"))
)
}
clicksModule <- function(input, output, session, lo... | /before.R | no_license | Appsilon/dynamic-shiny-modules | R | false | false | 1,848 | r | library(shiny)
clicksUI <- function(id) {
ns <- shiny::NS(id)
div(id = "module_content",
style = "background-color: #c9d8f0; width: 200px; padding: 5px",
actionButton(ns('local_counter'), "I'm inside the module"),
textOutput(ns("local_clicks"))
)
}
clicksModule <- function(input, output, session, lo... |
\name{pitch_value_contour}
\alias{pitch_value_contour}
\title{
Pitch Value Contour Plot
}
\description{
Constructs pitch value contour plot
}
\usage{
pitch_value_contour(df,
L = seq(-0.2, 0.2, by = 0.01),
title = "Pitch Value",
NCOL = 2)
}
\argume... | /man/pitch_value_contour.Rd | no_license | bayesball/CalledStrike | R | false | false | 689 | rd | \name{pitch_value_contour}
\alias{pitch_value_contour}
\title{
Pitch Value Contour Plot
}
\description{
Constructs pitch value contour plot
}
\usage{
pitch_value_contour(df,
L = seq(-0.2, 0.2, by = 0.01),
title = "Pitch Value",
NCOL = 2)
}
\argume... |
#' Add dev_history.Rmd file that drives package development
#'
#' @param pkg Path where to save file
#' @param overwrite Whether to overwrite existing dev_history.Rmd file
#' @param open Logical. Whether to open file after creation
#' @param dev_dir Name of directory for development Rmarkdown files. Default to "dev".
#... | /R/add_dev_history.R | permissive | ALanguillaume/fusen | R | false | false | 4,828 | r | #' Add dev_history.Rmd file that drives package development
#'
#' @param pkg Path where to save file
#' @param overwrite Whether to overwrite existing dev_history.Rmd file
#' @param open Logical. Whether to open file after creation
#' @param dev_dir Name of directory for development Rmarkdown files. Default to "dev".
#... |
# Support Vector Classifier
set.seed(1)
x = matrix(rnorm(20*2), ncol = 2)
y = c(rep(-1,10), rep(1,10))
x[y==1, ]=x[y==1,]+1
plot(x, col = (3-y))
dat = data.frame(x = x, y = as.factor(y))
library(e1071)
svmfit = svm(y~., data=dat, kernel = "linear",
cost = 10, sclae = FALSE)
plot(svmfit, dat)
svmfit$inde... | /SVM.R | no_license | ajayarunachalam/Statistical_Learning | R | false | false | 3,863 | r | # Support Vector Classifier
set.seed(1)
x = matrix(rnorm(20*2), ncol = 2)
y = c(rep(-1,10), rep(1,10))
x[y==1, ]=x[y==1,]+1
plot(x, col = (3-y))
dat = data.frame(x = x, y = as.factor(y))
library(e1071)
svmfit = svm(y~., data=dat, kernel = "linear",
cost = 10, sclae = FALSE)
plot(svmfit, dat)
svmfit$inde... |
#Install
if (!requireNamespace('BiocManager', quietly = TRUE))
install.packages('BiocManager')
BiocManager::install('EnhancedVolcano')
#Load package
library(EnhancedVolcano)
#CONVERT logFC from Seurat output (natural log) to Log2 value
#Read in CSV
DEdata<-read.csv("Z:/Documents/Grad School/Data/Sequencing Proje... | /DE_enhancedVolcano_051920.R | no_license | whtns/ds_scripts | R | false | false | 900 | r | #Install
if (!requireNamespace('BiocManager', quietly = TRUE))
install.packages('BiocManager')
BiocManager::install('EnhancedVolcano')
#Load package
library(EnhancedVolcano)
#CONVERT logFC from Seurat output (natural log) to Log2 value
#Read in CSV
DEdata<-read.csv("Z:/Documents/Grad School/Data/Sequencing Proje... |
library(wrapr)
### Name: apply_right.default
### Title: Default apply_right implementation.
### Aliases: apply_right.default
### ** Examples
# simulate a function pointer
apply_right.list <- function(pipe_left_arg,
pipe_right_arg,
pipe_environment,
... | /data/genthat_extracted_code/wrapr/examples/apply_right.default.Rd.R | no_license | surayaaramli/typeRrh | R | false | false | 532 | r | library(wrapr)
### Name: apply_right.default
### Title: Default apply_right implementation.
### Aliases: apply_right.default
### ** Examples
# simulate a function pointer
apply_right.list <- function(pipe_left_arg,
pipe_right_arg,
pipe_environment,
... |
library(humanleague)
### Name: qisi
### Title: QIS-IPF
### Aliases: qisi
### ** Examples
ageByGender = array(c(1,2,5,3,4,3,4,5,1,2), dim=c(5,2))
ethnicityByGender = array(c(4,6,5,6,4,5), dim=c(3,2))
seed = array(rep(1,30), dim=c(5,2,3))
result = qisi(seed, list(c(1,2), c(3,2)), list(ageByGender, ethnicityByGender))... | /data/genthat_extracted_code/humanleague/examples/qisi.Rd.R | no_license | surayaaramli/typeRrh | R | false | false | 324 | r | library(humanleague)
### Name: qisi
### Title: QIS-IPF
### Aliases: qisi
### ** Examples
ageByGender = array(c(1,2,5,3,4,3,4,5,1,2), dim=c(5,2))
ethnicityByGender = array(c(4,6,5,6,4,5), dim=c(3,2))
seed = array(rep(1,30), dim=c(5,2,3))
result = qisi(seed, list(c(1,2), c(3,2)), list(ageByGender, ethnicityByGender))... |
print.aep <-
function(x, ...) {
### summarising aep object information
cat("\n\tAnnual energy production\n\n")
tbl.units <- data.frame(t(names(x$aep)))
tbl.units[,] <- paste0("[", attr(x$aep[,3], "unit"), "]")
tbl.units[,1] <- paste0("[", attr(x$aep[,1], "unit"), "]")
tbl.units[,2] <- paste0("[", attr(x$aep[,2]... | /R/print.aep.R | no_license | paulponcet/bReeze | R | false | false | 1,092 | r | print.aep <-
function(x, ...) {
### summarising aep object information
cat("\n\tAnnual energy production\n\n")
tbl.units <- data.frame(t(names(x$aep)))
tbl.units[,] <- paste0("[", attr(x$aep[,3], "unit"), "]")
tbl.units[,1] <- paste0("[", attr(x$aep[,1], "unit"), "]")
tbl.units[,2] <- paste0("[", attr(x$aep[,2]... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/process_wilcox.R
\name{process_wilcox}
\alias{process_wilcox}
\title{Process the DAF analysis through a wilcoxon test}
\usage{
process_wilcox(data, ...)
}
\arguments{
\item{data}{the ouput of the \code{\link{build_DAF_data}} function... | /man/process_wilcox.Rd | no_license | leonarDubois/metaDAF | R | false | true | 506 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/process_wilcox.R
\name{process_wilcox}
\alias{process_wilcox}
\title{Process the DAF analysis through a wilcoxon test}
\usage{
process_wilcox(data, ...)
}
\arguments{
\item{data}{the ouput of the \code{\link{build_DAF_data}} function... |
# Kernel PCA
# Importing the dataset
dataset = read.csv(paste(getwd(), '/datasets/Social_Network_Ads.csv', sep = ""))
dataset = dataset[, 3:5]
# Splitting the dataset into the Training set and Test set
# install.packages('caTools')
library(caTools)
set.seed(123)
split = sample.split(dataset$Purchased, SplitRatio = 0.... | /kernel_pca.R | no_license | prathameshbhirud/R-machine-learning-code-samples-with-sample-datasets | R | false | false | 2,831 | r | # Kernel PCA
# Importing the dataset
dataset = read.csv(paste(getwd(), '/datasets/Social_Network_Ads.csv', sep = ""))
dataset = dataset[, 3:5]
# Splitting the dataset into the Training set and Test set
# install.packages('caTools')
library(caTools)
set.seed(123)
split = sample.split(dataset$Purchased, SplitRatio = 0.... |
print("TO BE DONE MANUALLY")
print("Before running the scripts make sure you have <<sqldf>> package installed ")
print( "This package will be used while loading the dataset subset <<read.csv.sql>>")
data <- read.csv.sql("household_power_consumption.txt", sql = "SELECT * from file WHERE Date in ('1/2/2007', '2/2/2007')... | /plot2.R | no_license | ndekwe/ExData_Plotting1 | R | false | false | 969 | r | print("TO BE DONE MANUALLY")
print("Before running the scripts make sure you have <<sqldf>> package installed ")
print( "This package will be used while loading the dataset subset <<read.csv.sql>>")
data <- read.csv.sql("household_power_consumption.txt", sql = "SELECT * from file WHERE Date in ('1/2/2007', '2/2/2007')... |
#' Correlation Plot Function
#'
#' This function returns a correlation plot for all continuous numeric variables in a given year.
#'
#' @param year Takes a 4 digit year between 1950 and 2017
#' @keywords NBA basketball correlation
#' @export
#' @examples
#' corr_plot(1987)
corr_plot <- function(year){
corr_data <- d... | /R/corr_plot.R | no_license | TheStreett/NBA.Search | R | false | false | 554 | r | #' Correlation Plot Function
#'
#' This function returns a correlation plot for all continuous numeric variables in a given year.
#'
#' @param year Takes a 4 digit year between 1950 and 2017
#' @keywords NBA basketball correlation
#' @export
#' @examples
#' corr_plot(1987)
corr_plot <- function(year){
corr_data <- d... |
##Name- Janki Patel
##CWID - 10457365
##subject - Knowledge discovery and data mining
##Class- CS513-A
##MidTerm_Exam
rm(list=ls())
ChooseFile<-file.choose()
Covid19<-read.csv(ChooseFile)
View(Covid19)
## Question 2(I): Summary
summary(Covid19)
## Question 2(II): Missing Values
MissingValuesCheck <- is.na(Cov... | /kddAssignment/MidExam/Midterm_Exam__Qus_2.r | no_license | janki1997/KDD | R | false | false | 1,038 | r | ##Name- Janki Patel
##CWID - 10457365
##subject - Knowledge discovery and data mining
##Class- CS513-A
##MidTerm_Exam
rm(list=ls())
ChooseFile<-file.choose()
Covid19<-read.csv(ChooseFile)
View(Covid19)
## Question 2(I): Summary
summary(Covid19)
## Question 2(II): Missing Values
MissingValuesCheck <- is.na(Cov... |
source('~/MFweb/data_analysis/10_stats/make_string.R')
library(car)
library(tidyverse)
library(ggpubr)
library(rstatix)
library(readxl)
library(lsr)
library(effectsize)
library(Hmisc)
library("PerformanceAnalytics")
library(ppcor)
dataMFweb <- read_excel("~/MFweb/data_analysis/10_stats/web_d... | /10_stats/biv_part_corr/main_corr_biv_partial_totalscore.R | no_license | MagDub/MFweb-data_analysis | R | false | false | 5,262 | r | source('~/MFweb/data_analysis/10_stats/make_string.R')
library(car)
library(tidyverse)
library(ggpubr)
library(rstatix)
library(readxl)
library(lsr)
library(effectsize)
library(Hmisc)
library("PerformanceAnalytics")
library(ppcor)
dataMFweb <- read_excel("~/MFweb/data_analysis/10_stats/web_d... |
# for t0
setwd("C:/Thesis_analysis/Development_corridors/conefor/run_1/inputs/t0")
shell("C:/Thesis_analysis/Development_corridors/conefor/run_1/inputs/t0/conefor_1_0_86_bcc_x86.exe -nodeFile nodes_adj_22678839_1.txt -conFile distances_22678839_1.txt -t dist notall -confProb 1682.188314 0.36788 -PC -removal -... | /connefor_run.r | no_license | Konstant1na/Development_corridors | R | false | false | 7,069 | r |
# for t0
setwd("C:/Thesis_analysis/Development_corridors/conefor/run_1/inputs/t0")
shell("C:/Thesis_analysis/Development_corridors/conefor/run_1/inputs/t0/conefor_1_0_86_bcc_x86.exe -nodeFile nodes_adj_22678839_1.txt -conFile distances_22678839_1.txt -t dist notall -confProb 1682.188314 0.36788 -PC -removal -... |
### plotBrier.R ---
#----------------------------------------------------------------------
## author: Thomas Alexander Gerds
## created: Feb 23 2017 (11:07)
## Version:
## last-updated: Dec 6 2019 (11:18)
## By: Thomas Alexander Gerds
## Update #: 73
#------------------------------------------------... | /R/plotBrier.R | no_license | LoSerigne/riskRegression | R | false | false | 11,217 | r | ### plotBrier.R ---
#----------------------------------------------------------------------
## author: Thomas Alexander Gerds
## created: Feb 23 2017 (11:07)
## Version:
## last-updated: Dec 6 2019 (11:18)
## By: Thomas Alexander Gerds
## Update #: 73
#------------------------------------------------... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/kmdte.R
\name{kmdte}
\alias{kmdte}
\title{Kaplan-Meier Distributional Treatment Effect}
\usage{
kmdte(out, delta, treat, ysup = NULL, xpscore, b = 1000, ci = c(0.9, 0.95,
0.99), standardize = TRUE, cores = 1)
}
\arguments{
\item{out}{vector... | /man/kmdte.Rd | no_license | pedrohcgs/kmte | R | false | true | 1,953 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/kmdte.R
\name{kmdte}
\alias{kmdte}
\title{Kaplan-Meier Distributional Treatment Effect}
\usage{
kmdte(out, delta, treat, ysup = NULL, xpscore, b = 1000, ci = c(0.9, 0.95,
0.99), standardize = TRUE, cores = 1)
}
\arguments{
\item{out}{vector... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/mock.R
\name{mockup}
\alias{mockup}
\alias{tmp_package}
\alias{tmp_golem}
\alias{tmp_project}
\alias{tmp_ambiorix}
\alias{tmp_delete}
\title{Mock up}
\usage{
tmp_package()
tmp_golem()
tmp_project()
tmp_ambiorix()
tmp_delete(tmp)
}
\argume... | /man/mockup.Rd | permissive | DivadNojnarg/packer | R | false | true | 419 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/mock.R
\name{mockup}
\alias{mockup}
\alias{tmp_package}
\alias{tmp_golem}
\alias{tmp_project}
\alias{tmp_ambiorix}
\alias{tmp_delete}
\title{Mock up}
\usage{
tmp_package()
tmp_golem()
tmp_project()
tmp_ambiorix()
tmp_delete(tmp)
}
\argume... |
source("Functions.R")
#Image
size = 50
einstein <- readJPEG("Einstein.jpg") %>%
scale_image(size*2) %>%
spiral_cartesian(spiral_radius = size, num_coils = 50,
chord_length = 2, rotation = 0) %>%
project_image()
#Go-to color set
gg_colors <- sel_color <- c(
"#9affd0", #Aqua
"#ffb5f5", ... | /99_BlogHeader.R | no_license | ryantimpe/SpiralDrawings | R | false | false | 1,117 | r | source("Functions.R")
#Image
size = 50
einstein <- readJPEG("Einstein.jpg") %>%
scale_image(size*2) %>%
spiral_cartesian(spiral_radius = size, num_coils = 50,
chord_length = 2, rotation = 0) %>%
project_image()
#Go-to color set
gg_colors <- sel_color <- c(
"#9affd0", #Aqua
"#ffb5f5", ... |
#This document is shared across cobalt, WeightIt, and optweight
#Strings
word_list <- function(word.list = NULL, and.or = c("and", "or"), is.are = FALSE, quotes = FALSE) {
#When given a vector of strings, creates a string of the form "a and b"
#or "a, b, and c"
#If is.are, adds "is" or "are" appropriately
... | /R/SHARED.R | no_license | Zoe187419/cobalt | R | false | false | 37,771 | r | #This document is shared across cobalt, WeightIt, and optweight
#Strings
word_list <- function(word.list = NULL, and.or = c("and", "or"), is.are = FALSE, quotes = FALSE) {
#When given a vector of strings, creates a string of the form "a and b"
#or "a, b, and c"
#If is.are, adds "is" or "are" appropriately
... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/ses_operations.R
\name{ses_create_configuration_set_tracking_options}
\alias{ses_create_configuration_set_tracking_options}
\title{Creates an association between a configuration set and a custom domain
for open and click event tracking}
\usag... | /paws/man/ses_create_configuration_set_tracking_options.Rd | permissive | sanchezvivi/paws | R | false | true | 1,290 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/ses_operations.R
\name{ses_create_configuration_set_tracking_options}
\alias{ses_create_configuration_set_tracking_options}
\title{Creates an association between a configuration set and a custom domain
for open and click event tracking}
\usag... |
# Exercise 1: practice with basic R syntax
# Create a variable `hometown` that stores the city in which you were born
hometown <- "St. Louis"
# Assign your name to the variable `my_name`
my_name <- "Mike"
# Assign your height (in inches) to a variable `my_height`
my_height <- 73.5 # inches
# Create a variable `pup... | /chapter-05-exercises/exercise-1/exercise.R | permissive | ITCuw/RLessons-Solutions | R | false | false | 915 | r | # Exercise 1: practice with basic R syntax
# Create a variable `hometown` that stores the city in which you were born
hometown <- "St. Louis"
# Assign your name to the variable `my_name`
my_name <- "Mike"
# Assign your height (in inches) to a variable `my_height`
my_height <- 73.5 # inches
# Create a variable `pup... |
#' Method summary for ViSigrid object.
#' @title Method \code{summary-ViSigrid}
#' @name summary-ViSigrid-method
#' @rdname summary-ViSigrid-methods
#' @aliases summary,ViSigrid-method
#' @exportMethod summary
#' @docType methods
#' @param object a ViSigrid.
#' @return list \itemize{
#' \item{ \strong{ punctua... | /ViSiElse/R/summary.ViSigrid.r | no_license | ingted/R-Examples | R | false | false | 4,208 | r | #' Method summary for ViSigrid object.
#' @title Method \code{summary-ViSigrid}
#' @name summary-ViSigrid-method
#' @rdname summary-ViSigrid-methods
#' @aliases summary,ViSigrid-method
#' @exportMethod summary
#' @docType methods
#' @param object a ViSigrid.
#' @return list \itemize{
#' \item{ \strong{ punctua... |
getwd()
setwd("C:/Users/avon/Documents/R/ndc")
cmp1 <- read.csv(file = "saltcmp1.csv", header = TRUE, na.strings=c("","NA"), stringsAsFactors = FALSE)
cmp_d2 <- read.csv(file = "dummy2.csv", header = TRUE, na.strings=c("","NA"), stringsAsFactors = FALSE)
cmp_d1 <- read.csv(file = "dummy.csv", header = TRUE, na.stri... | /drugup/dummycmp0.R | no_license | gvravi/healapp | R | false | false | 754 | r | getwd()
setwd("C:/Users/avon/Documents/R/ndc")
cmp1 <- read.csv(file = "saltcmp1.csv", header = TRUE, na.strings=c("","NA"), stringsAsFactors = FALSE)
cmp_d2 <- read.csv(file = "dummy2.csv", header = TRUE, na.strings=c("","NA"), stringsAsFactors = FALSE)
cmp_d1 <- read.csv(file = "dummy.csv", header = TRUE, na.stri... |
#'@title calcHMFormFactor
#'
#'@description Calculate form factor (1+k_1) from the Holtrop & Mennen method.
#'
#'@param maxDraft Maximum summer load line draft (vector of numericals, m)
#'@param lwl Waterline length (vector of numericals, m) (see \code{\link{calclwl}})
#'@param breadth Moulded breadth (vector of numeri... | /ShipPowerModel/R/calcHMFormFactor.r | permissive | Misterfluff/Marine_Emissions_Tools | R | false | false | 1,876 | r | #'@title calcHMFormFactor
#'
#'@description Calculate form factor (1+k_1) from the Holtrop & Mennen method.
#'
#'@param maxDraft Maximum summer load line draft (vector of numericals, m)
#'@param lwl Waterline length (vector of numericals, m) (see \code{\link{calclwl}})
#'@param breadth Moulded breadth (vector of numeri... |
# Set universal variables -----------------------
API_PATH <- paste0("https://app.americansocceranalysis.com/api/v1/", LEAGUE_SCHEMA, "/")
# VIOLIN_MINUTES_CUTOFF <- 500
# VIOLIN_HEIGHT <- "450px"
# VIOLIN_WIDTH <- "96%"
# START_PLAYER <- NA # Dax
FIELD_WIDTH <- 80
FIELD_LENGTH <- 115
DATABASE_TIMEZONE <- "America... | /app/global.R | no_license | NlIceD/asa-shiny-app | R | false | false | 1,900 | r | # Set universal variables -----------------------
API_PATH <- paste0("https://app.americansocceranalysis.com/api/v1/", LEAGUE_SCHEMA, "/")
# VIOLIN_MINUTES_CUTOFF <- 500
# VIOLIN_HEIGHT <- "450px"
# VIOLIN_WIDTH <- "96%"
# START_PLAYER <- NA # Dax
FIELD_WIDTH <- 80
FIELD_LENGTH <- 115
DATABASE_TIMEZONE <- "America... |
library(dplyr
)
# temp cleaning script
tree_by_dists <- list.files("./analysis/data/raw_data/tree_splits/",
pattern = "berlin_trees_subset",
full.names = TRUE)
# # Charlottenburg -------------------------------------
#
# file_index <- grep("Charlotten... | /R/temp_dcr_script.R | permissive | the-Hull/berlin.trees | R | false | false | 5,721 | r | library(dplyr
)
# temp cleaning script
tree_by_dists <- list.files("./analysis/data/raw_data/tree_splits/",
pattern = "berlin_trees_subset",
full.names = TRUE)
# # Charlottenburg -------------------------------------
#
# file_index <- grep("Charlotten... |
#graphing
d <- read.table(file.choose(), header=T, sep="\t",quote='"', row.names=1) #measure1 Frm1DKdatdes.txt
d2<-read.table(file.choose(), header=T, sep="\t",quote='"', row.names=1)#measure 2 Frm2DKdatdes.txt
h <- read.table(file.choose(), header=T, sep="\t",quote='"', row.names=1) #measure harvest FrmHDKdatdes.txt
... | /draft_code_figures/Frgraphs.R | no_license | kgturner/FranceCG | R | false | false | 9,691 | r | #graphing
d <- read.table(file.choose(), header=T, sep="\t",quote='"', row.names=1) #measure1 Frm1DKdatdes.txt
d2<-read.table(file.choose(), header=T, sep="\t",quote='"', row.names=1)#measure 2 Frm2DKdatdes.txt
h <- read.table(file.choose(), header=T, sep="\t",quote='"', row.names=1) #measure harvest FrmHDKdatdes.txt
... |
## Examine how household energy usage varies over a 2-day period in February, 2007.
## This function creates graphs of Global Active Power, Voltage, Sub meter Power usage and Global reactive power over two day period
## for the dates 1/2/2007 and 2/2/2007
plot4 <- function(){
dataUrl <- "https://d396qusza40orc.cloudf... | /plot4.R | no_license | pdxpro/ExData_Plotting1 | R | false | false | 1,940 | r | ## Examine how household energy usage varies over a 2-day period in February, 2007.
## This function creates graphs of Global Active Power, Voltage, Sub meter Power usage and Global reactive power over two day period
## for the dates 1/2/2007 and 2/2/2007
plot4 <- function(){
dataUrl <- "https://d396qusza40orc.cloudf... |
rm(list = ls(all = TRUE))
# install the required packges if needed
#install.packages("INLA", repos="http://www.math.ntnu.no/inla/R/testing")
#install.packages("bigmemory")
#install.packages("snow")
#install.packages("Rmpi")
#install.packages("ade4")
#install.packages("sp")
#install.packages("BAS")
#install.packages("ht... | /examples/Protein Activity Data/Protein activity data pen.r | no_license | aliaksah/EMJMCMC2016 | R | false | false | 6,806 | r | rm(list = ls(all = TRUE))
# install the required packges if needed
#install.packages("INLA", repos="http://www.math.ntnu.no/inla/R/testing")
#install.packages("bigmemory")
#install.packages("snow")
#install.packages("Rmpi")
#install.packages("ade4")
#install.packages("sp")
#install.packages("BAS")
#install.packages("ht... |
library(CreditRisk)
### Name: calibrate.at1p
### Title: AT1P model calibration to market CDS data
### Aliases: calibrate.at1p
### ** Examples
calibrate.at1p(V0 = 1, cdsrate = cdsdata$Par.spread, r = cdsdata$ED.Zero.Curve,
t = cdsdata$Maturity)
| /data/genthat_extracted_code/CreditRisk/examples/calibrate.at1p.Rd.R | no_license | surayaaramli/typeRrh | R | false | false | 252 | r | library(CreditRisk)
### Name: calibrate.at1p
### Title: AT1P model calibration to market CDS data
### Aliases: calibrate.at1p
### ** Examples
calibrate.at1p(V0 = 1, cdsrate = cdsdata$Par.spread, r = cdsdata$ED.Zero.Curve,
t = cdsdata$Maturity)
|
library(motifbreakR)
library(BSgenome.Hsapiens.UCSC.hg19)
all.variants.df <- readRDS("allVariants.Rds")
results <- motifbreakR(snpList = all.variants.df,
filterp = TRUE,
pwmList = hocomoco,
verbose = TRUE,
threshold = 1e-4,
... | /fine-mapping/motifbreakr.R | permissive | pwh124/open_chromatin | R | false | false | 530 | r | library(motifbreakR)
library(BSgenome.Hsapiens.UCSC.hg19)
all.variants.df <- readRDS("allVariants.Rds")
results <- motifbreakR(snpList = all.variants.df,
filterp = TRUE,
pwmList = hocomoco,
verbose = TRUE,
threshold = 1e-4,
... |
# Assign
1->a
a<-1
a=1
assign("a", 1)
# Infinite: Inf
# We can operate normally with them
# Undefined: NaN
# Denotes a numeric number that is not a number: 0/0
# Missing: NA
# Denotes a not available value
# It is independent of the data type
# Empty: NULL
# Denotes an empty object, is skipped (i.e., removed) for V... | /Basic/Basic.R | no_license | serbelga/Data_Science_R | R | false | false | 723 | r | # Assign
1->a
a<-1
a=1
assign("a", 1)
# Infinite: Inf
# We can operate normally with them
# Undefined: NaN
# Denotes a numeric number that is not a number: 0/0
# Missing: NA
# Denotes a not available value
# It is independent of the data type
# Empty: NULL
# Denotes an empty object, is skipped (i.e., removed) for V... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/GSEA.R
\name{binomialtest.msig.enrch_deplet}
\alias{binomialtest.msig.enrch_deplet}
\title{binomialtest.msig.enrch_deplet}
\usage{
binomialtest.msig.enrch_deplet(mylist, All = All.genes, name,
thedatabase = db)
}
\description{
This function... | /man/binomialtest.msig.enrch_deplet.Rd | no_license | chenweng1991/EZsinglecell | R | false | true | 376 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/GSEA.R
\name{binomialtest.msig.enrch_deplet}
\alias{binomialtest.msig.enrch_deplet}
\title{binomialtest.msig.enrch_deplet}
\usage{
binomialtest.msig.enrch_deplet(mylist, All = All.genes, name,
thedatabase = db)
}
\description{
This function... |
### Logistic regresion - metadata ###
#Script to perform logistic regression test
#Steps:
#1.Metadata quality control: replace NA for median values and remove columns with only one level
#2.Convert taxonomy table into presence/absence taxonomy table (0,1)
#3.Model1: Logistic regression with all metadata
#4.Mod... | /Function Scripts/logistic_regression_function.R | no_license | pausura/Project_Intestinal_Microbiome | R | false | false | 16,140 | r | ### Logistic regresion - metadata ###
#Script to perform logistic regression test
#Steps:
#1.Metadata quality control: replace NA for median values and remove columns with only one level
#2.Convert taxonomy table into presence/absence taxonomy table (0,1)
#3.Model1: Logistic regression with all metadata
#4.Mod... |
#download.file("https://d396qusza40orc.cloudfront.net/getdata%2Fprojectfiles%2FUCI%20HAR%20Dataset.zip","data.zip")
#unzip("data.zip")
trainData<-read.csv("C:/Users/Dawit/Documents/CourseProject/UCI HAR Dataset/train/subject_train.txt")
#Column bind the all of the train data
trainData<-cbind(trainData,read.csv("C... | /run_analysis.R | no_license | DawitHabtemariam/GettingData | R | false | false | 1,743 | r |
#download.file("https://d396qusza40orc.cloudfront.net/getdata%2Fprojectfiles%2FUCI%20HAR%20Dataset.zip","data.zip")
#unzip("data.zip")
trainData<-read.csv("C:/Users/Dawit/Documents/CourseProject/UCI HAR Dataset/train/subject_train.txt")
#Column bind the all of the train data
trainData<-cbind(trainData,read.csv("C... |
### Exploratory Data Assignment
### Peer Graded Assignment: Course Project 1 by Evgeniy Paskin
### Setting environment
library(lubridate)
### Downloading and Reading file
FileName <- "exdata%2Fdata%2Fhousehold_power_consumption.zip"
download.file("https://d396qusza40orc.cloudfront.net/exdata%2Fdata%2Fhousehold_power... | /Plot2.R | no_license | EvgeniyPaskin/ExData_Plotting1 | R | false | false | 1,907 | r | ### Exploratory Data Assignment
### Peer Graded Assignment: Course Project 1 by Evgeniy Paskin
### Setting environment
library(lubridate)
### Downloading and Reading file
FileName <- "exdata%2Fdata%2Fhousehold_power_consumption.zip"
download.file("https://d396qusza40orc.cloudfront.net/exdata%2Fdata%2Fhousehold_power... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/user_defined_processes.R
\name{UserProcessCollection}
\alias{UserProcessCollection}
\title{User Defined Process Collection}
\description{
This object contains template functions from the users stored user defined processes (UDP), which can be... | /man/UserProcessCollection.Rd | permissive | Open-EO/openeo-r-client | R | false | true | 1,213 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/user_defined_processes.R
\name{UserProcessCollection}
\alias{UserProcessCollection}
\title{User Defined Process Collection}
\description{
This object contains template functions from the users stored user defined processes (UDP), which can be... |
i <- as.numeric(commandArgs(trailingOnly = TRUE))
library(segmentr)
library(rCGH)
library(GenomicRanges)
### get hg38 centromeres
hg38.centromeres <- rCGH::hg38
chr <- paste0("chr", hg38.centromeres$chrom)
chr[chr=="chr23"] <- "chrX"
chr[chr=="chr24"] <- "chrY"
centromeres <- GRanges(seqnames = chr,
... | /tcga_gbm_scripts/jfkit-scripts/4-segmentBins.R | no_license | cancer-genomics/gridcnp_analysis | R | false | false | 1,695 | r | i <- as.numeric(commandArgs(trailingOnly = TRUE))
library(segmentr)
library(rCGH)
library(GenomicRanges)
### get hg38 centromeres
hg38.centromeres <- rCGH::hg38
chr <- paste0("chr", hg38.centromeres$chrom)
chr[chr=="chr23"] <- "chrX"
chr[chr=="chr24"] <- "chrY"
centromeres <- GRanges(seqnames = chr,
... |
library(ggplot2)
ggplot(data = iris, aes(x = Petal.Width, y= Petal.Length, col=Species)) + geom_point()
ggsave("ggtest.png")
icon.glyphicon <- makeAwesomeIcon(icon = "flag", markerColor = "blue",
iconColor = "yellow",
squareMarker = TRUE)
ico... | /day15_2.R | no_license | starkwon/kwon | R | false | false | 5,012 | r | library(ggplot2)
ggplot(data = iris, aes(x = Petal.Width, y= Petal.Length, col=Species)) + geom_point()
ggsave("ggtest.png")
icon.glyphicon <- makeAwesomeIcon(icon = "flag", markerColor = "blue",
iconColor = "yellow",
squareMarker = TRUE)
ico... |
# Modern data ----
`%>%` <- magrittr::`%>%`
## Load data ----
### Metadata ----
other_southern_hemisphere_metadata <-
"data-raw/GLOBAL/other_southern_hemisphere_SPH.xlsx" %>%
readxl::read_excel(sheet = 1) %>%
janitor::clean_names() %>%
dplyr::rename(age_BP = age_bp) %>%
dplyr::mutate(ID_SAMPLE = seq_along(ent... | /data-raw/southern_hemisphere_pollen.R | permissive | special-uor/smpds | R | false | false | 13,334 | r | # Modern data ----
`%>%` <- magrittr::`%>%`
## Load data ----
### Metadata ----
other_southern_hemisphere_metadata <-
"data-raw/GLOBAL/other_southern_hemisphere_SPH.xlsx" %>%
readxl::read_excel(sheet = 1) %>%
janitor::clean_names() %>%
dplyr::rename(age_BP = age_bp) %>%
dplyr::mutate(ID_SAMPLE = seq_along(ent... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/utils.R
\name{readFasta}
\alias{readFasta}
\title{Read FASTA File}
\usage{
readFasta(file, rownames = FALSE)
}
\arguments{
\item{file}{File name of FASTA input.}
\item{rownames}{Use the sequence annotation line in file (starts with
\code{'>'... | /bbl/man/readFasta.Rd | no_license | akhikolla/InformationHouse | R | false | true | 941 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/utils.R
\name{readFasta}
\alias{readFasta}
\title{Read FASTA File}
\usage{
readFasta(file, rownames = FALSE)
}
\arguments{
\item{file}{File name of FASTA input.}
\item{rownames}{Use the sequence annotation line in file (starts with
\code{'>'... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/mfxi_lm.R
\name{mfxi.lm}
\alias{mfxi.lm}
\title{Run a Regression}
\usage{
mfxi.lm(formi, datai, vcv = "standard")
}
\arguments{
\item{formi}{regression formula}
\item{datai}{data for regression}
\item{vcv}{type of covariance correction}
}
\... | /PrettyR/man/mfxi.lm.Rd | permissive | Jadamso/PrettyR | R | false | true | 376 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/mfxi_lm.R
\name{mfxi.lm}
\alias{mfxi.lm}
\title{Run a Regression}
\usage{
mfxi.lm(formi, datai, vcv = "standard")
}
\arguments{
\item{formi}{regression formula}
\item{datai}{data for regression}
\item{vcv}{type of covariance correction}
}
\... |
# This script is to obtain end members froom a matrix. The data will be in 10 columns, approximately 6000 rows.
# First order of business is to figure out how the hell to do it!! The first hint alex provided was to "spherify"
# the data. Papers document a procedure called "whitening" which is a reference to spectral co... | /EM_find.R | no_license | p-hughes/Dirty_business | R | false | false | 1,240 | r | # This script is to obtain end members froom a matrix. The data will be in 10 columns, approximately 6000 rows.
# First order of business is to figure out how the hell to do it!! The first hint alex provided was to "spherify"
# the data. Papers document a procedure called "whitening" which is a reference to spectral co... |
# The following code allows for the analysis of 6 single cell RNAseq datasets of the human pancreas
# Information on these datasets can be found in the following locations:
# https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81076
# https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE85241
# https://www.ncbi.nlm.... | /Ref_panc.R | no_license | fmjlab/Pancreas_atlas_COVID19 | R | false | false | 17,978 | r | # The following code allows for the analysis of 6 single cell RNAseq datasets of the human pancreas
# Information on these datasets can be found in the following locations:
# https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81076
# https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE85241
# https://www.ncbi.nlm.... |
# Computes additional molecular attributes for molecules
add_mol_attribs <- function(moldbase, base=TRUE) {
# Adds to atoms:
# vd_ - vertex degree
# va_ - valence
# pi_ - the number of pi-electrons
# ar_ - aromaticity
# ne_ - vector of neighbours
# bo_ - vector of bond orders with ... | /cinf-molattribs.R | no_license | Gvein/DiplomaKarpov2018 | R | false | false | 1,963 | r | # Computes additional molecular attributes for molecules
add_mol_attribs <- function(moldbase, base=TRUE) {
# Adds to atoms:
# vd_ - vertex degree
# va_ - valence
# pi_ - the number of pi-electrons
# ar_ - aromaticity
# ne_ - vector of neighbours
# bo_ - vector of bond orders with ... |
#xgboost implemented on selected 34 features obtained using random forest and output is taken
#Saniya Ambavanekar
library(caret)
library(data.table)
library(xgboost)
xtrain_data<-fread("balanced_data_3.csv",stringsAsFactors = T)
View(xtrain_data)
str(xtrain_data)
smpl_size<-floor(0.75*nrow(xtrain_data))
set.seed(12... | /xgboost_code.R | no_license | DrRoad/Porto-Seguro-Safe-Driver-Prediction | R | false | false | 3,068 | r | #xgboost implemented on selected 34 features obtained using random forest and output is taken
#Saniya Ambavanekar
library(caret)
library(data.table)
library(xgboost)
xtrain_data<-fread("balanced_data_3.csv",stringsAsFactors = T)
View(xtrain_data)
str(xtrain_data)
smpl_size<-floor(0.75*nrow(xtrain_data))
set.seed(12... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/eeptools-package.r
\docType{data}
\name{stulevel}
\alias{stulevel}
\title{A synthetic data set of K-12 student attributes.}
\format{A data frame with 2700 observations on the following 32 variables.
\describe{
\item{\code{X}}{a numeric vecto... | /man/stulevel.Rd | no_license | nutterb/eeptools | R | false | true | 2,188 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/eeptools-package.r
\docType{data}
\name{stulevel}
\alias{stulevel}
\title{A synthetic data set of K-12 student attributes.}
\format{A data frame with 2700 observations on the following 32 variables.
\describe{
\item{\code{X}}{a numeric vecto... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/qs.text.R
\name{qs.text.string}
\alias{qs.text.string}
\title{String Output}
\usage{
qs.text.string(qs, varname = "question.name",
question.text = "question.text")
}
\arguments{
\item{qs}{Questions data frame}
\item{varname}{Character vect... | /man/qs.text.string.Rd | no_license | Boshoffsmit/novaReport | R | false | true | 559 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/qs.text.R
\name{qs.text.string}
\alias{qs.text.string}
\title{String Output}
\usage{
qs.text.string(qs, varname = "question.name",
question.text = "question.text")
}
\arguments{
\item{qs}{Questions data frame}
\item{varname}{Character vect... |
# Author: Robert J. Hijmans
# Date: November 2009, Jan 2016
# Version 1.0
# Licence GPL v3
setMethod('as.integer', signature(x='Raster'),
function(x, filename='', ...) {
if (nlayers(x) > 1) {
out <- brick(x, values=FALSE)
} else {
out <- raster(x)
}
datatype <- list(...)$datatype
if... | /R/as.logical.R | no_license | cran/raster | R | false | false | 2,253 | r | # Author: Robert J. Hijmans
# Date: November 2009, Jan 2016
# Version 1.0
# Licence GPL v3
setMethod('as.integer', signature(x='Raster'),
function(x, filename='', ...) {
if (nlayers(x) > 1) {
out <- brick(x, values=FALSE)
} else {
out <- raster(x)
}
datatype <- list(...)$datatype
if... |
# server.R
library(dplyr)
# Read in data
source('./scripts/build_map.R')
source('./scripts/build_scatter.R')
df <- read.csv('./data/electoral_college.csv', stringsAsFactors = FALSE)
state_codes <- read.csv('./data/state_codes.csv', stringsAsFactors = FALSE)
# Join together state.codes and df
joined_data <- left_join... | /exercise-5/server.R | permissive | engv/ch16-shiny | R | false | false | 781 | r |
# server.R
library(dplyr)
# Read in data
source('./scripts/build_map.R')
source('./scripts/build_scatter.R')
df <- read.csv('./data/electoral_college.csv', stringsAsFactors = FALSE)
state_codes <- read.csv('./data/state_codes.csv', stringsAsFactors = FALSE)
# Join together state.codes and df
joined_data <- left_join... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/dataDaf.R
\docType{data}
\name{myDafData}
\alias{myDafData}
\title{Sample DAF data frame}
\format{
A data frame containing polymorphic sites for selected (i) and neutral (0) classes at different DAF categories
}
\usage{
myDafData
}
\descripti... | /man/myDafData.Rd | no_license | BGD-UAB/iMKT | R | false | true | 610 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/dataDaf.R
\docType{data}
\name{myDafData}
\alias{myDafData}
\title{Sample DAF data frame}
\format{
A data frame containing polymorphic sites for selected (i) and neutral (0) classes at different DAF categories
}
\usage{
myDafData
}
\descripti... |
# featnames -----------
#' Get the feature labels from a dfm
#'
#' Get the features from a document-feature matrix, which are stored as the
#' column names of the \link{dfm} object.
#' @param x the dfm whose features will be extracted
#' @return character vector of the feature labels
#' @examples
#' inaugDfm <- dfm(d... | /R/dfm-methods.R | no_license | tpaskhalis/quanteda | R | false | false | 8,453 | r | # featnames -----------
#' Get the feature labels from a dfm
#'
#' Get the features from a document-feature matrix, which are stored as the
#' column names of the \link{dfm} object.
#' @param x the dfm whose features will be extracted
#' @return character vector of the feature labels
#' @examples
#' inaugDfm <- dfm(d... |
#średnia z próby (pojemność)
displacement_mu <- mean(Autko$displacement)
#odchylenie standardowe (pojemność)
displacement_sigma <- sd(Autko$displacement)
#NORMALNE PRZEDZIAŁY UFNOŚCI DLA WARTOŚCI OCZEKIWANEJ
#przedział ufności 90%
displacement_przedz90norm <- round(displacement_mu+c(-1, 1)*sigma/sqrt(398)*qnorm(.95), ... | /Projekt_MS/Zajęcki/MS/Przedziały_ufności_displacement.R | no_license | MacPiston/MS_Proj_2020 | R | false | false | 1,399 | r | #średnia z próby (pojemność)
displacement_mu <- mean(Autko$displacement)
#odchylenie standardowe (pojemność)
displacement_sigma <- sd(Autko$displacement)
#NORMALNE PRZEDZIAŁY UFNOŚCI DLA WARTOŚCI OCZEKIWANEJ
#przedział ufności 90%
displacement_przedz90norm <- round(displacement_mu+c(-1, 1)*sigma/sqrt(398)*qnorm(.95), ... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/audio_aug_signal.R
\name{NoiseColor}
\alias{NoiseColor}
\title{Noise Color}
\usage{
NoiseColor(...)
}
\arguments{
\item{...}{parameters to pass}
}
\value{
module
}
\description{
Noise Color
}
| /man/NoiseColor.Rd | permissive | han-tun/fastai | R | false | true | 270 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/audio_aug_signal.R
\name{NoiseColor}
\alias{NoiseColor}
\title{Noise Color}
\usage{
NoiseColor(...)
}
\arguments{
\item{...}{parameters to pass}
}
\value{
module
}
\description{
Noise Color
}
|
#### Humac analysis pre vs. post fifth RT session
## Author: Kristian Lian
# Purpose: This script plots mean torque per supplement (both through intervention and pre vs. post) results from the ribose project,
# and analyses the data per test (isometric, isokinetic 60, isokinetic 240) in a linear model.
## Time-poi... | /R/Post5th.change.R | no_license | Kristianlian/master_degree | R | false | false | 12,989 | r | #### Humac analysis pre vs. post fifth RT session
## Author: Kristian Lian
# Purpose: This script plots mean torque per supplement (both through intervention and pre vs. post) results from the ribose project,
# and analyses the data per test (isometric, isokinetic 60, isokinetic 240) in a linear model.
## Time-poi... |
# This program reads the crypto data from Bitfinex
install.packages("Quandl")
install.packages("dygraphs")
library(xts)
library("Quandl")
library("dygraphs")
# Quandl.api_key('***************')
BTC <- Quandl("BITFINEX/BTCUSD",type="xts")
ETH <- Quandl("BITFINEX/ETHUSD")
IOTA <- Quandl("BITFINEX/IOTUSD")
test <- as.m... | /Crypto.R | no_license | mlacher/R_Crypto | R | false | false | 388 | r | # This program reads the crypto data from Bitfinex
install.packages("Quandl")
install.packages("dygraphs")
library(xts)
library("Quandl")
library("dygraphs")
# Quandl.api_key('***************')
BTC <- Quandl("BITFINEX/BTCUSD",type="xts")
ETH <- Quandl("BITFINEX/ETHUSD")
IOTA <- Quandl("BITFINEX/IOTUSD")
test <- as.m... |
#' @title Median unbiased estimator
#' @description Calculates the median unbiased estimator of true response rate
#' for for Simon-like designs.
#' @details Median unbiased estimator is the value of response rate such that
#' the p-value is 0.5 (\emph{Koyama and Chen, 2008}). The solution is found using
#' numerical ... | /R/pk.r | no_license | arsenionhacolo/InferenceBEAGSD | R | false | false | 1,099 | r | #' @title Median unbiased estimator
#' @description Calculates the median unbiased estimator of true response rate
#' for for Simon-like designs.
#' @details Median unbiased estimator is the value of response rate such that
#' the p-value is 0.5 (\emph{Koyama and Chen, 2008}). The solution is found using
#' numerical ... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/genotyping.R
\name{genotype_inversions}
\alias{genotype_inversions}
\title{Bayesian genotyper for inversions}
\usage{
genotype_inversions(
WW_reads,
WC_reads,
regions,
background,
base_state,
sex = "female",
prior = c(0.33, 0.33... | /invertyper/man/genotype_inversions.Rd | no_license | mattssca/InvertypeR | R | false | true | 3,100 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/genotyping.R
\name{genotype_inversions}
\alias{genotype_inversions}
\title{Bayesian genotyper for inversions}
\usage{
genotype_inversions(
WW_reads,
WC_reads,
regions,
background,
base_state,
sex = "female",
prior = c(0.33, 0.33... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/data.R
\docType{data}
\name{ExteNET_2A}
\alias{ExteNET_2A}
\title{ExteNET, figure 2A}
\format{
A data frame of 2,840 observations and 3 variables:
\tabular{lll}{
\tab \code{time} \tab event time (in months) \cr
\tab \code{event} \tab DFS even... | /man/ExteNET_2A.Rd | no_license | Owain-S/kmdata | R | false | true | 963 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/data.R
\docType{data}
\name{ExteNET_2A}
\alias{ExteNET_2A}
\title{ExteNET, figure 2A}
\format{
A data frame of 2,840 observations and 3 variables:
\tabular{lll}{
\tab \code{time} \tab event time (in months) \cr
\tab \code{event} \tab DFS even... |
cluster.functions <- makeClusterFunctionsSGE("~/SGETemplate.tmpl")
| /WholeGenomeAlignment/pipelines/BatchJobs.R | no_license | alexander-nash/CSC | R | false | false | 68 | r | cluster.functions <- makeClusterFunctionsSGE("~/SGETemplate.tmpl")
|
clean_data <- function(x) {
#shows companies with highest total returns in descending order o identify outliers/data errors
x %>%
select(-name) %>%
filter(row_number(desc(tret)) < 10) %>%
arrange(desc(tret))
}
}
| /clean_data.R | no_license | syl2/Final-Project-Code | R | false | false | 266 | r | clean_data <- function(x) {
#shows companies with highest total returns in descending order o identify outliers/data errors
x %>%
select(-name) %>%
filter(row_number(desc(tret)) < 10) %>%
arrange(desc(tret))
}
}
|
#library(data.table)
#' @export
#'
nonLinearTest <- function(rawData, outVars, xVars, modelType = "lrm", uniqueSampleSize = 6,returnKable=FALSE) {
modelType <- match.arg(modelType, c("lrm", "cph", "ols"))
modelFun <- get(modelType)
resultOut <- NULL
if (length(outVars) == length(xVars)) { # One outVar to one ... | /R/rmsEasierModel.R | no_license | slzhao/cqsR | R | false | false | 13,792 | r | #library(data.table)
#' @export
#'
nonLinearTest <- function(rawData, outVars, xVars, modelType = "lrm", uniqueSampleSize = 6,returnKable=FALSE) {
modelType <- match.arg(modelType, c("lrm", "cph", "ols"))
modelFun <- get(modelType)
resultOut <- NULL
if (length(outVars) == length(xVars)) { # One outVar to one ... |
#Teralytics 2018 Origin Destination
#set working directory and access code to read in SQL queries
setwd(dirname(rstudioapi::getActiveDocumentContext()$path))
source("..\\..\\..\\Common_functions\\Loading_in_packages.R")
source("..\\..\\..\\Common_functions\\readSQL.R")
getwd()
# file comparison code between a CSV sou... | /Origin-destination/Teralytics/QAQC/2018 Teralytics Origin Destination QAQC.R | no_license | SANDAG/DPOE | R | false | false | 1,733 | r | #Teralytics 2018 Origin Destination
#set working directory and access code to read in SQL queries
setwd(dirname(rstudioapi::getActiveDocumentContext()$path))
source("..\\..\\..\\Common_functions\\Loading_in_packages.R")
source("..\\..\\..\\Common_functions\\readSQL.R")
getwd()
# file comparison code between a CSV sou... |
#' Add tooltips to a plot.
#'
#' @param vis Visualisation to add tooltips to.
#' @param html A function that takes a single argument as input. This argument
#' will be a list containing the data in the mark currently under the
#' mouse. It should return a string containing HTML or \code{NULL} to
#' hide tooltip f... | /R/interact_tooltip.R | no_license | jjallaire/ggvis | R | false | false | 1,892 | r | #' Add tooltips to a plot.
#'
#' @param vis Visualisation to add tooltips to.
#' @param html A function that takes a single argument as input. This argument
#' will be a list containing the data in the mark currently under the
#' mouse. It should return a string containing HTML or \code{NULL} to
#' hide tooltip f... |
\name{azprocedure}
\alias{azprocedure}
\docType{data}
\title{azprocedure}
\description{
Data come from the 1991 Arizona cardiovascular patient files. A subset of the
fields was selected to model the differential length of stay for patients entering
the hospital to receive one of two standard cardiovascular pro... | /man/azprocedure.Rd | no_license | cran/COUNT | R | false | false | 2,164 | rd | \name{azprocedure}
\alias{azprocedure}
\docType{data}
\title{azprocedure}
\description{
Data come from the 1991 Arizona cardiovascular patient files. A subset of the
fields was selected to model the differential length of stay for patients entering
the hospital to receive one of two standard cardiovascular pro... |
# Copyright 2019 Observational Health Data Sciences and Informatics
#
# This file is part of IUDClaimsStudy
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licen... | /additionalEstimationPackage/IUDClaimsEstimation/R/SynthesizePositiveControls.R | permissive | cukarthik/IUDEHREstimationStudy | R | false | false | 7,783 | r | # Copyright 2019 Observational Health Data Sciences and Informatics
#
# This file is part of IUDClaimsStudy
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licen... |
#' LCTMtools: A package for computing a number of Latent Class Trajectory Model tools for a given hlme() object or SAS model.
#'
#' The LCTMtools package provides two categories of important functions:
#' LCTMtools (to test a models adequacy) and LCTMcompare (to aid model selection).
#'
#' @section LCTMtools functions:... | /R/LCTMtools.R | no_license | hlennon/LCTMtools | R | false | false | 617 | r | #' LCTMtools: A package for computing a number of Latent Class Trajectory Model tools for a given hlme() object or SAS model.
#'
#' The LCTMtools package provides two categories of important functions:
#' LCTMtools (to test a models adequacy) and LCTMcompare (to aid model selection).
#'
#' @section LCTMtools functions:... |
testlist <- list(AgeVector = c(-4.73074171454048e-167, 2.2262381097027e-76, -9.12990429452974e-204, 5.97087417427845e-79, 4.7390525269307e-300, 6.58361441690132e-121, 3.58611068565168e-154, -2.94504776827523e-186, 2.62380314702636e-116, -6.78950518864266e+23, 6.99695749856012e-167, 4.81092546418635e-304, 1.11271562... | /myTAI/inst/testfiles/cpp_bootMatrix/AFL_cpp_bootMatrix/cpp_bootMatrix_valgrind_files/1615765404-test.R | no_license | akhikolla/updatedatatype-list3 | R | false | false | 1,809 | r | testlist <- list(AgeVector = c(-4.73074171454048e-167, 2.2262381097027e-76, -9.12990429452974e-204, 5.97087417427845e-79, 4.7390525269307e-300, 6.58361441690132e-121, 3.58611068565168e-154, -2.94504776827523e-186, 2.62380314702636e-116, -6.78950518864266e+23, 6.99695749856012e-167, 4.81092546418635e-304, 1.11271562... |
library(dplyr)
library(tidyr)
pg <- src_postgres()
regex_results <- tbl(pg, sql("SELECT * FROM director_bio.regex_results"))
other_dirs <-
tbl(pg, sql("SELECT * FROM director_bio.other_directorships")) %>%
select(director_id, other_director_id, fy_end, other_start_date,
other_end_date, other_first... | /directorships/create_retag.R | no_license | iangow/director_bio | R | false | false | 1,901 | r | library(dplyr)
library(tidyr)
pg <- src_postgres()
regex_results <- tbl(pg, sql("SELECT * FROM director_bio.regex_results"))
other_dirs <-
tbl(pg, sql("SELECT * FROM director_bio.other_directorships")) %>%
select(director_id, other_director_id, fy_end, other_start_date,
other_end_date, other_first... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/qPLEXanalyzer-package.R
\docType{data}
\name{human_anno}
\alias{human_anno}
\title{human_anno dataset}
\format{
An object of class \code{\link{data.frame}} consisting of uniprot
human protein annotation.
}
\description{
Uniprot Human protein ... | /man/human_anno.Rd | no_license | crukci-bioinformatics/qPLEXanalyzer | R | false | true | 374 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/qPLEXanalyzer-package.R
\docType{data}
\name{human_anno}
\alias{human_anno}
\title{human_anno dataset}
\format{
An object of class \code{\link{data.frame}} consisting of uniprot
human protein annotation.
}
\description{
Uniprot Human protein ... |
library(rvest)
library(dplyr)
library(RCurl)
library(scales)
require(rgdal)
require(ggmap)
require(Cairo)
require(gpclib)
require(maptools)
require(reshape)
library(stringr)
library(ggplot2)
library(tidyr)
# burl <- "http://www.depdata.ct.gov/wildlife/sighting/bearsight.asp"
#bear_table <- burl %>% read_html() %>%
# ... | /bears.R | no_license | trendct-data/bear-sightings | R | false | false | 3,152 | r | library(rvest)
library(dplyr)
library(RCurl)
library(scales)
require(rgdal)
require(ggmap)
require(Cairo)
require(gpclib)
require(maptools)
require(reshape)
library(stringr)
library(ggplot2)
library(tidyr)
# burl <- "http://www.depdata.ct.gov/wildlife/sighting/bearsight.asp"
#bear_table <- burl %>% read_html() %>%
# ... |
library(ggplot2)
library(gridExtra)
library(FSA)
library(multcomp)
library(car)
library(fitdistrplus)
library(dplyr)
countries<-read.csv("Intro to Inferential Statistics//Countries.csv")
credit<-read.csv("Intro to Inferential Statistics//Credit.csv")
str(credit)
##################################################
####... | /Intro to Inferential Statistics/Inf_Stats_1.R | no_license | HermineGrigoryan/DS-Summer-School | R | false | false | 2,512 | r | library(ggplot2)
library(gridExtra)
library(FSA)
library(multcomp)
library(car)
library(fitdistrplus)
library(dplyr)
countries<-read.csv("Intro to Inferential Statistics//Countries.csv")
credit<-read.csv("Intro to Inferential Statistics//Credit.csv")
str(credit)
##################################################
####... |
# Exercise 1: working with data frames (review)
# Install devtools package: allows installations from GitHub
install.packages("devtools")
# Install "fueleconomy" dataset from GitHub
devtools::install_github("hadley/fueleconomy")
# Use the `libary()` function to load the "fueleconomy" package
library(fueleconomy)
# ... | /chapter-11-exercises/exercise-1/exercise.R | permissive | ronron0428/book-exercises | R | false | false | 2,283 | r | # Exercise 1: working with data frames (review)
# Install devtools package: allows installations from GitHub
install.packages("devtools")
# Install "fueleconomy" dataset from GitHub
devtools::install_github("hadley/fueleconomy")
# Use the `libary()` function to load the "fueleconomy" package
library(fueleconomy)
# ... |
###############################################################################
# Description: Add comment
#
# Author: Linh Tran <tranlm@berkeley.edu>
# Date: Aug 27, 2015
###############################################################################
#' @export
SL.svm.LT = function (Y, X, newX, family, type.reg = "ep... | /R/SuperLearner.R | no_license | guhjy/lrecCompare | R | false | false | 6,229 | r | ###############################################################################
# Description: Add comment
#
# Author: Linh Tran <tranlm@berkeley.edu>
# Date: Aug 27, 2015
###############################################################################
#' @export
SL.svm.LT = function (Y, X, newX, family, type.reg = "ep... |
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