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 |
|---|---|---|---|---|---|---|---|---|---|
setwd("~/R Projects/lectures-ml/competition/titanic-classification/titanic-kaggle")
library(doParallel)
cl <- makeCluster(detectCores(), type='PSOCK')
registerDoParallel(cl)
library(ggplot2)
library(plyr)
library(dplyr)
library(pROC)
library(zoo)
library(caret)
training <- read.csv("./data/train.csv", stringsAsFac... | /titanic-classification-model-tuning.R | no_license | designervga/titanic-kaggle | R | false | false | 15,611 | r | setwd("~/R Projects/lectures-ml/competition/titanic-classification/titanic-kaggle")
library(doParallel)
cl <- makeCluster(detectCores(), type='PSOCK')
registerDoParallel(cl)
library(ggplot2)
library(plyr)
library(dplyr)
library(pROC)
library(zoo)
library(caret)
training <- read.csv("./data/train.csv", stringsAsFac... |
ibrary(tidyverse)
load("rdas/murders.rda")
murders %>% mutate(abb = reorder(abb, rate)) %>%
ggplot(aes(abb, rate)) +
geom_bar(width = 0.5, stat = "identity", color = "black") +
coord_flip()
ggsave("figs/barplot.png") | /analysis.R | no_license | Shaolin-Mei/murders | R | false | false | 230 | r | ibrary(tidyverse)
load("rdas/murders.rda")
murders %>% mutate(abb = reorder(abb, rate)) %>%
ggplot(aes(abb, rate)) +
geom_bar(width = 0.5, stat = "identity", color = "black") +
coord_flip()
ggsave("figs/barplot.png") |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/function_prepare.R
\name{stat_segm}
\alias{stat_segm}
\title{Calculate statistics on a given segmentation}
\usage{
stat_segm(
data,
diag.var,
order.var = NULL,
param = NULL,
seg.type = NULL,
nseg
)
}
\arguments{
\i... | /man/stat_segm.Rd | no_license | rpatin/segclust2d | R | false | true | 1,304 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/function_prepare.R
\name{stat_segm}
\alias{stat_segm}
\title{Calculate statistics on a given segmentation}
\usage{
stat_segm(
data,
diag.var,
order.var = NULL,
param = NULL,
seg.type = NULL,
nseg
)
}
\arguments{
\i... |
shinyServer(function(input, output) {
value<-reactiveValues(click=FALSE)
Data <- reactive({
# input$file1 will be NULL initially. After the user selects and uploads a
# file, it will be a data frame with 'name', 'size', 'type', and 'datapath'
# columns. The 'datapath' column will co... | /admin/server.R | no_license | shubham414/Analytics-in-Academics | R | false | false | 20,964 | r |
shinyServer(function(input, output) {
value<-reactiveValues(click=FALSE)
Data <- reactive({
# input$file1 will be NULL initially. After the user selects and uploads a
# file, it will be a data frame with 'name', 'size', 'type', and 'datapath'
# columns. The 'datapath' column will co... |
library(MESS)
### Name: clotting
### Title: Blood clotting for 158 rats
### Aliases: clotting
### Keywords: datasets
### ** Examples
data(clotting)
dim(clotting)
head(clotting)
day0= transform(clotting, day=0, pca=PCA0)
day4= transform(clotting, day=4, pca=PCA4)
day.both= rbind(day0,day4)
m1= lm(pca ~ rat +... | /data/genthat_extracted_code/MESS/examples/clotting.Rd.R | no_license | surayaaramli/typeRrh | R | false | false | 541 | r | library(MESS)
### Name: clotting
### Title: Blood clotting for 158 rats
### Aliases: clotting
### Keywords: datasets
### ** Examples
data(clotting)
dim(clotting)
head(clotting)
day0= transform(clotting, day=0, pca=PCA0)
day4= transform(clotting, day=4, pca=PCA4)
day.both= rbind(day0,day4)
m1= lm(pca ~ rat +... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/facet_gridh_paginate.R
\docType{data}
\name{facet_gridh_paginate}
\alias{facet_gridh_paginate}
\alias{FacetGridhPaginate}
\title{Split facet_grid from boxploth over multiple plots}
\usage{
facet_gridh_paginate(
facets,
margins = FALSE,
... | /man/facet_gridh_paginate.Rd | no_license | crotoc/ggfaceth | R | false | true | 4,197 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/facet_gridh_paginate.R
\docType{data}
\name{facet_gridh_paginate}
\alias{facet_gridh_paginate}
\alias{FacetGridhPaginate}
\title{Split facet_grid from boxploth over multiple plots}
\usage{
facet_gridh_paginate(
facets,
margins = FALSE,
... |
\name{california.blkgrp}
\Rdversion{1.1}
\alias{california.blkgrp}
\docType{data}
\title{
california.blkgrp
}
\description{
california.blkgrp is a \code{\link[sp:SpatialPolygonsDataFrame]{SpatialPolygonsDataFrame}} with polygons made from the 2000 US Census tiger/line boundary files (\url{http://www.census.gov/geo/www... | /man/california.blkgrp.Rd | no_license | cran/UScensus2000blkgrp | R | false | false | 9,851 | rd | \name{california.blkgrp}
\Rdversion{1.1}
\alias{california.blkgrp}
\docType{data}
\title{
california.blkgrp
}
\description{
california.blkgrp is a \code{\link[sp:SpatialPolygonsDataFrame]{SpatialPolygonsDataFrame}} with polygons made from the 2000 US Census tiger/line boundary files (\url{http://www.census.gov/geo/www... |
############################### Calculate beta diversity for datasets #########
# R function to script
# R script (09/13) for analyses in Weissbecker et al. 2018
# version: August 2018
######################
library(vegan) #vegan_2.5-2
library(gdata) #gdata_2.18.0
#sessionInfo()
#R version 3.5.1 ... | /09_Plot_beta_fungi_localtree_function.R | no_license | cw-ufz/BEFChina_fungaldiversity | R | false | false | 1,369 | r | ############################### Calculate beta diversity for datasets #########
# R function to script
# R script (09/13) for analyses in Weissbecker et al. 2018
# version: August 2018
######################
library(vegan) #vegan_2.5-2
library(gdata) #gdata_2.18.0
#sessionInfo()
#R version 3.5.1 ... |
#cmd -> 프로젝트폴더로 이동
# -> java -Dwebdriver.chrome.driver="chromedriver.exe" -jar selenium-server-standalone-4.0.0-alpha-1.jar -port 4445
library(RSelenium)
remDr <- remoteDriver(remoteServerAddr = "localhost" ,
port = 4445, browserName = "chrome")
remDr$open()
site <- 'https://www.acmicpc.net/pro... | /s_project.R | no_license | lee-dk/R | R | false | false | 2,812 | r | #cmd -> 프로젝트폴더로 이동
# -> java -Dwebdriver.chrome.driver="chromedriver.exe" -jar selenium-server-standalone-4.0.0-alpha-1.jar -port 4445
library(RSelenium)
remDr <- remoteDriver(remoteServerAddr = "localhost" ,
port = 4445, browserName = "chrome")
remDr$open()
site <- 'https://www.acmicpc.net/pro... |
library(powstreams)
library(streamMetabolizer)
library(plyr)
library(fBasics)
#Elevation files required a little clean-up ahead of importing into R.
#Following sites caused problems importing data, so they were deleted:
#02231254, 03220510, 295554095095093402, 46093912....
#Set working directory
workingDir <- "c:/Use... | /sandbox_ted/dielSaturation06022015.R | permissive | tedstets-usgs/stream_metab_usa | R | false | false | 6,824 | r | library(powstreams)
library(streamMetabolizer)
library(plyr)
library(fBasics)
#Elevation files required a little clean-up ahead of importing into R.
#Following sites caused problems importing data, so they were deleted:
#02231254, 03220510, 295554095095093402, 46093912....
#Set working directory
workingDir <- "c:/Use... |
# harmony
suppressMessages(library("arrow"))
suppressMessages(library("Seurat"))
suppressMessages(library("harmony"))
source("../../scripts/cluster_tools.r")
samplingPos <- "."
OUT <- paste0("03-expression/merged/cellAlign/", samplingPos)
dir.create(OUT, showWarnings = F, recursive = T)
#load(file = paste0(OUT, "/cel... | /scRNA-seq/pooled_data_all/17_thymus/do_cellAlign.r | permissive | shunsunsun/GeACT | R | false | false | 4,350 | r | # harmony
suppressMessages(library("arrow"))
suppressMessages(library("Seurat"))
suppressMessages(library("harmony"))
source("../../scripts/cluster_tools.r")
samplingPos <- "."
OUT <- paste0("03-expression/merged/cellAlign/", samplingPos)
dir.create(OUT, showWarnings = F, recursive = T)
#load(file = paste0(OUT, "/cel... |
#' mkhist() function to create
#' histograms from df variables
#' @export
mkhist <- function(x){
print(x %>% head())
x %>% gather() %>% head()
ggplot(gather(x), aes(value)) +
geom_histogram(bins=20) +
facet_wrap(~key, scales='free_x')
}
| /R/mkhist.R | no_license | wyocompbio/mkhist | R | false | false | 248 | r | #' mkhist() function to create
#' histograms from df variables
#' @export
mkhist <- function(x){
print(x %>% head())
x %>% gather() %>% head()
ggplot(gather(x), aes(value)) +
geom_histogram(bins=20) +
facet_wrap(~key, scales='free_x')
}
|
#Plot method
GWAS_Manhattan<-
function(GWAS,col.snps=c("black","gray"),col.detected=c("blue"),col.text="black",title="GWAS Tutorial Manhattan Plot",display.text=TRUE){
manhat<-GWAS[!grepl("[A-z]",GWAS$chr),]
#sort the data by chromosome and then location
manhat.ord<-manhat[order(as.numeric(m... | /GWAS_ManhattanFunction.R | no_license | foulkes/GWAS-Tutorial | R | false | false | 2,414 | r | #Plot method
GWAS_Manhattan<-
function(GWAS,col.snps=c("black","gray"),col.detected=c("blue"),col.text="black",title="GWAS Tutorial Manhattan Plot",display.text=TRUE){
manhat<-GWAS[!grepl("[A-z]",GWAS$chr),]
#sort the data by chromosome and then location
manhat.ord<-manhat[order(as.numeric(m... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/kpDataBackground.R
\name{kpDataBackground}
\alias{kpDataBackground}
\title{kpDataBackground}
\usage{
kpDataBackground(karyoplot, r0=NULL, r1=NULL, data.panel=1, color="gray90", ...)
}
\arguments{
\item{karyoplot}{(a \code{KaryoPlot} object) T... | /man/kpDataBackground.Rd | no_license | YTLogos/karyoploteR | R | false | true | 2,933 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/kpDataBackground.R
\name{kpDataBackground}
\alias{kpDataBackground}
\title{kpDataBackground}
\usage{
kpDataBackground(karyoplot, r0=NULL, r1=NULL, data.panel=1, color="gray90", ...)
}
\arguments{
\item{karyoplot}{(a \code{KaryoPlot} object) T... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/chem_scatter.R
\name{chem_scatter}
\alias{chem_scatter}
\title{Creates a scatterplot with regression line}
\usage{
chem_scatter(data, xvar, yvar, xlab = "Insert X-axis label",
ylab = "Insert Y-axis label", intercept = NULL, reg_line = TRUE)... | /man/chem_scatter.Rd | no_license | ismayc/chemistr | R | false | true | 1,092 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/chem_scatter.R
\name{chem_scatter}
\alias{chem_scatter}
\title{Creates a scatterplot with regression line}
\usage{
chem_scatter(data, xvar, yvar, xlab = "Insert X-axis label",
ylab = "Insert Y-axis label", intercept = NULL, reg_line = TRUE)... |
#!/usr/bin/env Rscript
#' ----------------------------------------------------------------------------
#' title: run_tests.R
#' description:
#' Script to run all unittests for the distributed Cox Proportional Hazards
#' algorithm.
#' author:
#' Melle Sieswerda <m.sieswerda@iknl.nl>
#' Anna van der Zalm <a.vand... | /run_tests.R | permissive | AnanyaCN/d_coxph | R | false | false | 645 | r | #!/usr/bin/env Rscript
#' ----------------------------------------------------------------------------
#' title: run_tests.R
#' description:
#' Script to run all unittests for the distributed Cox Proportional Hazards
#' algorithm.
#' author:
#' Melle Sieswerda <m.sieswerda@iknl.nl>
#' Anna van der Zalm <a.vand... |
#Manipulacao de dados
library(tidyverse)
#Manipulacao de series temporais
library(tsibble)
#Funcoes de previsao
library(fable)
#Graficos e estatistitcas de series temporais
library(feasts)
#Series temporais tidy
library(tsibbledata)
#Todos itens acima e mais
library(fpp3)
#Plot
library(ggplot2)
#um tibb... | /covid.R | no_license | eduardo92005-debug/Cienc.Dados | R | false | false | 3,714 | r | #Manipulacao de dados
library(tidyverse)
#Manipulacao de series temporais
library(tsibble)
#Funcoes de previsao
library(fable)
#Graficos e estatistitcas de series temporais
library(feasts)
#Series temporais tidy
library(tsibbledata)
#Todos itens acima e mais
library(fpp3)
#Plot
library(ggplot2)
#um tibb... |
DESeq2_gprofiler <- tabItem(tabName = "DESeq2_gprofiler", br(), br(),
h2("Pathway and Gene Ontology"), br()
,boxPlus(collapsible=T, closable=F, width = 10, title = "DGE results table"
,status = "primary", solidHeader = TRUE
... | /shared/DESeq2_gprofilerUI.R | no_license | rosericazondekon/irnaa | R | false | false | 863 | r | DESeq2_gprofiler <- tabItem(tabName = "DESeq2_gprofiler", br(), br(),
h2("Pathway and Gene Ontology"), br()
,boxPlus(collapsible=T, closable=F, width = 10, title = "DGE results table"
,status = "primary", solidHeader = TRUE
... |
#'@section Standard descriptive variables (generated by this package):
#' \describe{
#'
#' \item{extended_country_name}{The name of the country in the Gleditsch-Ward
#' system of states, or the official name of the
#' entity (for non-sovereign entities and states not in the Gleditsch and Ward
#' system of states) ... | /man-roxygen/standard-variables.R | no_license | Vittoriabrown/democracyData | R | false | false | 1,896 | r | #'@section Standard descriptive variables (generated by this package):
#' \describe{
#'
#' \item{extended_country_name}{The name of the country in the Gleditsch-Ward
#' system of states, or the official name of the
#' entity (for non-sovereign entities and states not in the Gleditsch and Ward
#' system of states) ... |
library(ape)
testtree <- read.tree("4265_0.txt")
unrooted_tr <- unroot(testtree)
write.tree(unrooted_tr, file="4265_0_unrooted.txt") | /codeml_files/newick_trees_processed/4265_0/rinput.R | no_license | DaniBoo/cyanobacteria_project | R | false | false | 135 | r | library(ape)
testtree <- read.tree("4265_0.txt")
unrooted_tr <- unroot(testtree)
write.tree(unrooted_tr, file="4265_0_unrooted.txt") |
library(imager)
library(shiny)
library(ggplot2)
library(ggpubr)
# img <- load.image("03-Rscripts/zoom-plots/www/Captura.PNG")
# img <- load.image("03-Rscripts/zoom-plots/www/jaime_pino.png")
# img <- load.image("03-Rscripts/zoom-plots/www/Pinu_gorria_02_Asier.png")
# ABRIR PRIMERO LA IMAGEN CON IMAGER
#### UI ####
ui... | /03-Rscripts/zoom-plots/app-imager-ggplot.R | no_license | Joacala/trini | R | false | false | 1,809 | r | library(imager)
library(shiny)
library(ggplot2)
library(ggpubr)
# img <- load.image("03-Rscripts/zoom-plots/www/Captura.PNG")
# img <- load.image("03-Rscripts/zoom-plots/www/jaime_pino.png")
# img <- load.image("03-Rscripts/zoom-plots/www/Pinu_gorria_02_Asier.png")
# ABRIR PRIMERO LA IMAGEN CON IMAGER
#### UI ####
ui... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/coef.CBFM.R
\name{coef.CBFM}
\alias{coef.CBFM}
\title{Extract model coefficients from a CBFM fit}
\usage{
\method{coef}{CBFM}(object, ...)
}
\arguments{
\item{object}{An object of class \code{CBFM}.}
\item{...}{Not used in this case.}
}
\val... | /man/coef.CBFM.Rd | no_license | fhui28/CBFM | R | false | true | 4,559 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/coef.CBFM.R
\name{coef.CBFM}
\alias{coef.CBFM}
\title{Extract model coefficients from a CBFM fit}
\usage{
\method{coef}{CBFM}(object, ...)
}
\arguments{
\item{object}{An object of class \code{CBFM}.}
\item{...}{Not used in this case.}
}
\val... |
library(rvest)
#-- Clare Accommodation --
ClareAccommodation <- read_html("https://www.tripadvisor.ie/Hotels-g186595-County_Clare-Hotels.html")
ClareAccommodation <- ClareAccommodation %>% html_nodes('.prw_filters_hsx_radio_resp .label') %>% html_text()
ClareAccommodation
#-- Cork Accommodation --
Cor... | /SoftwareProject/DataCollection/Accomodation/MunsterAccomodation.R | no_license | robbiejenkinson/SoftwareProject | R | false | false | 1,696 | r | library(rvest)
#-- Clare Accommodation --
ClareAccommodation <- read_html("https://www.tripadvisor.ie/Hotels-g186595-County_Clare-Hotels.html")
ClareAccommodation <- ClareAccommodation %>% html_nodes('.prw_filters_hsx_radio_resp .label') %>% html_text()
ClareAccommodation
#-- Cork Accommodation --
Cor... |
FindT1Up <- function(patterns, now) {
t1 <- tail(patterns$t2.x[patterns$t2.x < now], 1)
t1 <- which.min(points[t1:now]) + t1 -1
while(now - t1 >= move.duration) {
t1 <- which.min(points[t1:now]) + t1 -1
}
t1
}
FindT1Down <- function(patterns, now) {
t1 <- tail(patterns$t2.x[patterns$t2.x < now... | /global/R/lookback_global.R | no_license | prashantg123/PMnPred | R | false | false | 13,848 | r | FindT1Up <- function(patterns, now) {
t1 <- tail(patterns$t2.x[patterns$t2.x < now], 1)
t1 <- which.min(points[t1:now]) + t1 -1
while(now - t1 >= move.duration) {
t1 <- which.min(points[t1:now]) + t1 -1
}
t1
}
FindT1Down <- function(patterns, now) {
t1 <- tail(patterns$t2.x[patterns$t2.x < now... |
testlist <- list(Rs = numeric(0), atmp = numeric(0), relh = numeric(0), temp = c(8.5728629954997e-312, 1.56898424065867e+82, 8.96970809549085e-158, -1.3258495253834e-113, 2.79620616433656e-119, -6.80033518839696e+41, 2.68298522855314e-211, 1444042902784.06, 6.68889884134308e+51, -4.05003163986346e-308, -3.526018204... | /meteor/inst/testfiles/ET0_Makkink/AFL_ET0_Makkink/ET0_Makkink_valgrind_files/1615854999-test.R | no_license | akhikolla/updatedatatype-list3 | R | false | false | 883 | r | testlist <- list(Rs = numeric(0), atmp = numeric(0), relh = numeric(0), temp = c(8.5728629954997e-312, 1.56898424065867e+82, 8.96970809549085e-158, -1.3258495253834e-113, 2.79620616433656e-119, -6.80033518839696e+41, 2.68298522855314e-211, 1444042902784.06, 6.68889884134308e+51, -4.05003163986346e-308, -3.526018204... |
library(survival)
library(cmprsk)
# sample size
ndim = 1000
nsim = 1000
### true parameters ###
beta11=0.2
beta12=-0.5
beta13=1
p=0.65
T0 = c(20,21,22)
for(m in 1:nsim)
{
### generate the covariates ###
z1=rnorm(ndim)
z1=pmax(pmin(z1,3.5),-3.5)
z2=ifelse(runif(ndim)<0.7,1,0)
z3=rnorm(ndim)
z3=pmax(p... | /Simulation/Fine/Under Alternative/TrueFineNRI1.R | permissive | WangandYu/NRIandIDI | R | false | false | 4,866 | r |
library(survival)
library(cmprsk)
# sample size
ndim = 1000
nsim = 1000
### true parameters ###
beta11=0.2
beta12=-0.5
beta13=1
p=0.65
T0 = c(20,21,22)
for(m in 1:nsim)
{
### generate the covariates ###
z1=rnorm(ndim)
z1=pmax(pmin(z1,3.5),-3.5)
z2=ifelse(runif(ndim)<0.7,1,0)
z3=rnorm(ndim)
z3=pmax(p... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/Train.R
\name{train_generic}
\alias{train_generic}
\title{Train an h2o model using the generic architecture}
\usage{
train_generic(model, info)
}
\arguments{
\item{model}{the name of the function to run}
\item{info}{the data for use with the... | /man/train_generic.Rd | no_license | NSAPH/airpred | R | false | true | 370 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/Train.R
\name{train_generic}
\alias{train_generic}
\title{Train an h2o model using the generic architecture}
\usage{
train_generic(model, info)
}
\arguments{
\item{model}{the name of the function to run}
\item{info}{the data for use with the... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/elb_service.R
\name{elb}
\alias{elb}
\title{Elastic Load Balancing}
\usage{
elb(config = list())
}
\arguments{
\item{config}{Optional configuration of credentials, endpoint, and/or region.
\itemize{
\item{\strong{access_key_id}:} {AWS access ... | /man/elb.Rd | no_license | cran/paws.networking | R | false | true | 8,538 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/elb_service.R
\name{elb}
\alias{elb}
\title{Elastic Load Balancing}
\usage{
elb(config = list())
}
\arguments{
\item{config}{Optional configuration of credentials, endpoint, and/or region.
\itemize{
\item{\strong{access_key_id}:} {AWS access ... |
data <-read.csv("household_power_consumption.txt",head=TRUE,sep=";",na.strings = "?")
data2 <- transform(data, MyTime=strptime(paste(Date,Time,sep=""),format="%d/%m/%Y %T"))
startInterval <- strptime("2007-02-01 00:00:01",format="%Y-%m-%d %T")
endtInterval <- strptime("2007-02-02 23:59:59",format="%Y-%m-%d %T")
data3 <... | /plot1.R | no_license | pacosoft2000/ExData_Plotting1 | R | false | false | 589 | r | data <-read.csv("household_power_consumption.txt",head=TRUE,sep=";",na.strings = "?")
data2 <- transform(data, MyTime=strptime(paste(Date,Time,sep=""),format="%d/%m/%Y %T"))
startInterval <- strptime("2007-02-01 00:00:01",format="%Y-%m-%d %T")
endtInterval <- strptime("2007-02-02 23:59:59",format="%Y-%m-%d %T")
data3 <... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/pastef.r
\name{pastef}
\alias{pastef}
\title{Paste with "/" as the separator}
\usage{
pastef(...)
}
\arguments{
\item{...}{Objects to paste together}
}
\description{
Paste with "/" as the separator
}
| /man/pastef.Rd | no_license | James-Thorson/ss3sim | R | false | true | 279 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/pastef.r
\name{pastef}
\alias{pastef}
\title{Paste with "/" as the separator}
\usage{
pastef(...)
}
\arguments{
\item{...}{Objects to paste together}
}
\description{
Paste with "/" as the separator
}
|
context("SQLDataFrame-methods")
test.db <- system.file("extdata", "test.db", package = "SQLDataFrame")
conn <- DBI::dbConnect(dbDriver("SQLite"), dbname = test.db)
obj <- SQLDataFrame(conn = conn, dbtable = "colData",
dbkey = "sampleID")
## methods
test_that("[[,SQLDataFrame works",
{
## key v... | /tests/testthat/test_SQLDataFrame-methods.R | no_license | Bioconductor/SQLDataFrame | R | false | false | 3,662 | r | context("SQLDataFrame-methods")
test.db <- system.file("extdata", "test.db", package = "SQLDataFrame")
conn <- DBI::dbConnect(dbDriver("SQLite"), dbname = test.db)
obj <- SQLDataFrame(conn = conn, dbtable = "colData",
dbkey = "sampleID")
## methods
test_that("[[,SQLDataFrame works",
{
## key v... |
testlist <- list(Rs = numeric(0), atmp = c(-6.73292524882432e+44, 1.25561609525069e+163, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0), relh = c(7.64681398433... | /meteor/inst/testfiles/ET0_Makkink/AFL_ET0_Makkink/ET0_Makkink_valgrind_files/1615864065-test.R | no_license | akhikolla/updatedatatype-list3 | R | false | false | 608 | r | testlist <- list(Rs = numeric(0), atmp = c(-6.73292524882432e+44, 1.25561609525069e+163, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0), relh = c(7.64681398433... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/lightsail_operations.R
\name{lightsail_get_relational_database_master_user_password}
\alias{lightsail_get_relational_database_master_user_password}
\title{Returns the current, previous, or pending versions of the master user
password for a Li... | /cran/paws.compute/man/lightsail_get_relational_database_master_user_password.Rd | permissive | peoplecure/paws | R | false | true | 1,491 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/lightsail_operations.R
\name{lightsail_get_relational_database_master_user_password}
\alias{lightsail_get_relational_database_master_user_password}
\title{Returns the current, previous, or pending versions of the master user
password for a Li... |
rm(list = ls())
library(tools)
hydat_tecplot<-function(workdirectory,filename_list,summary_file,save_filename){
setwd(workdirectory)
time_origin<-('19000101') # set the reference date, here 1900Jan01 is the excel time
for (i in 1:length(filename_list)) {
filename=filename_list[i]
ncol... | /Hydat_Tecplot_R/Hydat_Tecplot_monthly.R | no_license | namedyangfan/R_Aquanty | R | false | false | 2,767 | r | rm(list = ls())
library(tools)
hydat_tecplot<-function(workdirectory,filename_list,summary_file,save_filename){
setwd(workdirectory)
time_origin<-('19000101') # set the reference date, here 1900Jan01 is the excel time
for (i in 1:length(filename_list)) {
filename=filename_list[i]
ncol... |
context("npn_phenophases")
test_that("npn_phenophases works", {
npn_set_env(get_test_env())
vcr::use_cassette("npn_phenophases_1", {
pp <- npn_phenophases()
})
expect_is(pp, "data.frame")
expect_is(pp$phenophase_name, "character")
expect_equal(trimws(pp[1,"phenophase_name"]),"First leaf")
expect_g... | /tests/testthat/test-npn-phenophases.R | permissive | hulaba/rnpn | R | false | false | 3,573 | r | context("npn_phenophases")
test_that("npn_phenophases works", {
npn_set_env(get_test_env())
vcr::use_cassette("npn_phenophases_1", {
pp <- npn_phenophases()
})
expect_is(pp, "data.frame")
expect_is(pp$phenophase_name, "character")
expect_equal(trimws(pp[1,"phenophase_name"]),"First leaf")
expect_g... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/metR_ArrowGrob.R
\name{makeContent.arrow2}
\alias{makeContent.arrow2}
\title{Make content for an arrow}
\usage{
\method{makeContent}{arrow2}(x)
}
\arguments{
\item{x}{: a grid grob}
}
\value{
a grid grob or gTree
}
\description{
Function to m... | /man/makeContent.arrow2.Rd | permissive | wStockhausen/wtsGIS | R | false | true | 536 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/metR_ArrowGrob.R
\name{makeContent.arrow2}
\alias{makeContent.arrow2}
\title{Make content for an arrow}
\usage{
\method{makeContent}{arrow2}(x)
}
\arguments{
\item{x}{: a grid grob}
}
\value{
a grid grob or gTree
}
\description{
Function to m... |
library(tester)
### Name: is_single_negative_decimal
### Title: Is single negative decimal
### Aliases: is_single_negative_decimal
### ** Examples
is_single_negative_decimal(-3/4) # TRUE
is_single_negative_decimal(0.01) # FALSE
is_single_negative_decimal("hoskdflksfd") # FALSE
is_single_negative_decimal("1.0") ... | /data/genthat_extracted_code/tester/examples/is_single_negative_decimal.Rd.R | no_license | surayaaramli/typeRrh | R | false | false | 372 | r | library(tester)
### Name: is_single_negative_decimal
### Title: Is single negative decimal
### Aliases: is_single_negative_decimal
### ** Examples
is_single_negative_decimal(-3/4) # TRUE
is_single_negative_decimal(0.01) # FALSE
is_single_negative_decimal("hoskdflksfd") # FALSE
is_single_negative_decimal("1.0") ... |
### Explanatory Data Analysis: Course Project 2
###Plot 4
# Across the United States, how have emissions from coal combustion-related sources changed from 1999???2008?
library(plyr)
library(ggplot2)
##Read in data
NEI <- readRDS("./exploratory analysis/Course Project 2/exdata-data-NEI_data/summarySCC_PM25.rds")
SCC ... | /Course Project 2/plot4.R | no_license | jonneyliu/Exploratory-Data-Analysis | R | false | false | 1,473 | r | ### Explanatory Data Analysis: Course Project 2
###Plot 4
# Across the United States, how have emissions from coal combustion-related sources changed from 1999???2008?
library(plyr)
library(ggplot2)
##Read in data
NEI <- readRDS("./exploratory analysis/Course Project 2/exdata-data-NEI_data/summarySCC_PM25.rds")
SCC ... |
#
# This is a Shiny web application. You can run the application by clicking
# the 'Run App' button above.
#
# Find out more about building applications with Shiny here:
#
# http://shiny.rstudio.com/
#
library(shiny)
library(dplyr)
library(tidyr)
library(ggplot2)
library(ggthemes)
library(animation)
... | /app.R | no_license | tanghd/climate-change | R | false | false | 9,180 | r | #
# This is a Shiny web application. You can run the application by clicking
# the 'Run App' button above.
#
# Find out more about building applications with Shiny here:
#
# http://shiny.rstudio.com/
#
library(shiny)
library(dplyr)
library(tidyr)
library(ggplot2)
library(ggthemes)
library(animation)
... |
#Karoliina Suonpää, 7.2.2017
#RStudio Exercise 3, data wrangling (data: UCI Machine Learning Repository, Student Alcohol consumption)
#set workind directory
setwd("Z:/Jatko-opinnot/Tilastotiede 2016/IODS/IODS-project/Data")
#check working directory
getwd()
#read the data from portuguese class
por<-read.csv("studen... | /Data/create_alc.R | no_license | karosuon/IODS-project | R | false | false | 2,733 | r | #Karoliina Suonpää, 7.2.2017
#RStudio Exercise 3, data wrangling (data: UCI Machine Learning Repository, Student Alcohol consumption)
#set workind directory
setwd("Z:/Jatko-opinnot/Tilastotiede 2016/IODS/IODS-project/Data")
#check working directory
getwd()
#read the data from portuguese class
por<-read.csv("studen... |
#!/usr/bin/env Rscript
## Plotting permutations as circle plots.
args = commandArgs(trailingOnly=TRUE)
library(tidyverse)
library(forcats)
library(ggrepel)
library(wesanderson)
library(rstatix)
outdir <- "plots"
indir <- "../../data_release/"
outroot<- "Fig_LMER"
breednames <- as_tibble(read.csv(paste(indir,"/Refe... | /plot/plot_LMER.R | no_license | DarwinsArk/muttomics | R | false | false | 15,670 | r | #!/usr/bin/env Rscript
## Plotting permutations as circle plots.
args = commandArgs(trailingOnly=TRUE)
library(tidyverse)
library(forcats)
library(ggrepel)
library(wesanderson)
library(rstatix)
outdir <- "plots"
indir <- "../../data_release/"
outroot<- "Fig_LMER"
breednames <- as_tibble(read.csv(paste(indir,"/Refe... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/dtable-bind_order_prune_subset.R
\name{dtable_subset}
\alias{dtable_subset}
\title{subset a dtable}
\usage{
dtable_subset(x, ..., all.attr = FALSE)
}
\arguments{
\item{x}{a dtable}
\item{...}{arguments passed to \code{subset}}
\item{all.att... | /man/dtable_subset.Rd | no_license | renlund/descripteur | R | false | true | 412 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/dtable-bind_order_prune_subset.R
\name{dtable_subset}
\alias{dtable_subset}
\title{subset a dtable}
\usage{
dtable_subset(x, ..., all.attr = FALSE)
}
\arguments{
\item{x}{a dtable}
\item{...}{arguments passed to \code{subset}}
\item{all.att... |
library(featurefinder)
### Name: parseSplits
### Title: parseSplits
### Aliases: parseSplits
### Keywords: saveTree
### ** Examples
require(featurefinder)
data(examples)
parseSplits(treesAll[[1]][[2]])
| /data/genthat_extracted_code/featurefinder/examples/parseSplits.Rd.R | no_license | surayaaramli/typeRrh | R | false | false | 210 | r | library(featurefinder)
### Name: parseSplits
### Title: parseSplits
### Aliases: parseSplits
### Keywords: saveTree
### ** Examples
require(featurefinder)
data(examples)
parseSplits(treesAll[[1]][[2]])
|
% Generated by roxygen2 (4.0.2): do not edit by hand
\name{fixed.intervals}
\alias{fixed.intervals}
\title{Fixed intervals}
\usage{
fixed.intervals(n, M)
}
\arguments{
\item{n}{a number of endpoints to choose from}
\item{M}{a number of intervals to generate}
}
\value{
a 2-column matrix with start (first column) and en... | /man/fixed.intervals.Rd | no_license | pra1981/wbs | R | false | false | 1,013 | rd | % Generated by roxygen2 (4.0.2): do not edit by hand
\name{fixed.intervals}
\alias{fixed.intervals}
\title{Fixed intervals}
\usage{
fixed.intervals(n, M)
}
\arguments{
\item{n}{a number of endpoints to choose from}
\item{M}{a number of intervals to generate}
}
\value{
a 2-column matrix with start (first column) and en... |
summary_des <- function(J, type, alpha, beta, delta, ratio, Pi0, Pi1,
nCmax, equal, w, piO, efficacy, futility,
efficacy_type, efficacy_param, futility_type,
futility_param) {
if (J == 1) {
stage <- "one-stage... | /R/summaries.R | no_license | cran/ph2rand | R | false | false | 21,759 | r | summary_des <- function(J, type, alpha, beta, delta, ratio, Pi0, Pi1,
nCmax, equal, w, piO, efficacy, futility,
efficacy_type, efficacy_param, futility_type,
futility_param) {
if (J == 1) {
stage <- "one-stage... |
hpc <- read.csv('household_power_consumption.txt', sep=";", na.strings="?", as.is=T)
feb_hpc <- hpc[hpc$Date == '1/2/2007' | hpc$Date == '2/2/2007', ]
feb_hpc$DateTime <- strptime(paste(feb_hpc$Date, feb_hpc$Time, sep=" "), format="%d/%m/%Y %H:%M:%S")
png(file="plot4.png",width=480,height=480)
par(mfcol=c(2,2))
plot(fe... | /plot4.R | no_license | retrofactor/ExData_Plotting1 | R | false | false | 897 | r | hpc <- read.csv('household_power_consumption.txt', sep=";", na.strings="?", as.is=T)
feb_hpc <- hpc[hpc$Date == '1/2/2007' | hpc$Date == '2/2/2007', ]
feb_hpc$DateTime <- strptime(paste(feb_hpc$Date, feb_hpc$Time, sep=" "), format="%d/%m/%Y %H:%M:%S")
png(file="plot4.png",width=480,height=480)
par(mfcol=c(2,2))
plot(fe... |
rm( list = ls( all.names = TRUE) ) ; invisible( gc( ) )
setwd( "/users/user/Desktop/studies 2014-2015/Robust methods/assign02/tex" )
Sweave( file = "../assign02.Stex" )
B <- pnorm( .5 )
C <- 8 * ( 1 - B ) / ( 3 * pi )
## Define functions
## The actual distribution function
F <- function( x ) suppressWarnings(
C ... | /year_14_15/fall_2014/robust_methods/assignments/assign02/problem_3.R | permissive | ivannz/study_notes | R | false | false | 2,585 | r | rm( list = ls( all.names = TRUE) ) ; invisible( gc( ) )
setwd( "/users/user/Desktop/studies 2014-2015/Robust methods/assign02/tex" )
Sweave( file = "../assign02.Stex" )
B <- pnorm( .5 )
C <- 8 * ( 1 - B ) / ( 3 * pi )
## Define functions
## The actual distribution function
F <- function( x ) suppressWarnings(
C ... |
# Sentiment lexicons
# Load dplyr and tidytext
library(dplyr)
library(tidytext)
# Choose the bing lexicon
get_sentiments("bing")
# Choose the nrc lexicon
get_sentiments("nrc") %>%
count(sentiment) # Count words by sentiment
###############################################################
## Inner join to impleme... | /Tidy Text Mining.R | no_license | spensorflow/Utilities | R | false | false | 17,902 | r | # Sentiment lexicons
# Load dplyr and tidytext
library(dplyr)
library(tidytext)
# Choose the bing lexicon
get_sentiments("bing")
# Choose the nrc lexicon
get_sentiments("nrc") %>%
count(sentiment) # Count words by sentiment
###############################################################
## Inner join to impleme... |
/Operaciones de matrices.R | no_license | Katherine-Ramirez-Cubillos/Introducci-n-Programaci-n | R | false | false | 2,268 | r | ||
% Generated by roxygen2 (4.1.1): do not edit by hand
% Please edit documentation in R/lfda.R
\name{\%^\%}
\alias{\%^\%}
\title{Negative One Half Matrix Power Operator}
\usage{
x \%^\% n
}
\arguments{
\item{x}{the matrix we want to operate on}
\item{n}{the exponent}
}
\value{
the matrix after negative one half power
}
... | /pkg/caret/man/grapes-pow-grapes.Rd | no_license | wwbrannon/caret | R | false | false | 413 | rd | % Generated by roxygen2 (4.1.1): do not edit by hand
% Please edit documentation in R/lfda.R
\name{\%^\%}
\alias{\%^\%}
\title{Negative One Half Matrix Power Operator}
\usage{
x \%^\% n
}
\arguments{
\item{x}{the matrix we want to operate on}
\item{n}{the exponent}
}
\value{
the matrix after negative one half power
}
... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/http-browse.r
\name{BROWSE}
\alias{BROWSE}
\title{Open specified url in browser.}
\usage{
BROWSE(url = NULL, config = list(), ..., handle = NULL)
}
\arguments{
\item{url}{the url of the page to retrieve}
\item{config}{All configuration optio... | /man/BROWSE.Rd | permissive | r-lib/httr | R | false | true | 1,537 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/http-browse.r
\name{BROWSE}
\alias{BROWSE}
\title{Open specified url in browser.}
\usage{
BROWSE(url = NULL, config = list(), ..., handle = NULL)
}
\arguments{
\item{url}{the url of the page to retrieve}
\item{config}{All configuration optio... |
library(BiodiversityR)
### Name: accumresult
### Title: Alternative Species Accumulation Curve Results
### Aliases: accumresult accumplot accumcomp
### Keywords: multivariate
### ** Examples
library(vegan)
data(dune.env)
data(dune)
dune.env$site.totals <- apply(dune,1,sum)
Accum.1 <- accumresult(dune, y=dune.env, s... | /data/genthat_extracted_code/BiodiversityR/examples/accumresult.Rd.R | no_license | surayaaramli/typeRrh | R | false | false | 614 | r | library(BiodiversityR)
### Name: accumresult
### Title: Alternative Species Accumulation Curve Results
### Aliases: accumresult accumplot accumcomp
### Keywords: multivariate
### ** Examples
library(vegan)
data(dune.env)
data(dune)
dune.env$site.totals <- apply(dune,1,sum)
Accum.1 <- accumresult(dune, y=dune.env, s... |
source('load.R')
library(bayesm)
col.boxscores <- function(x) { colSums( x[ , 5:ncol(x)], na.rm = TRUE ) }
espn.schedule <- dbGetData( "SELECT * FROM `schedule`" )
ratings <- dbGetData("SELECT * FROM `ratings`")
strength <- dbGetData("SELECT * FROM `strength`")
for(i in 3:ncol(strength))
{
strength[ , i ] <- as.n... | /mcmc_approx.R | no_license | drewlanenga/jackboot-firebase | R | false | false | 4,828 | r |
source('load.R')
library(bayesm)
col.boxscores <- function(x) { colSums( x[ , 5:ncol(x)], na.rm = TRUE ) }
espn.schedule <- dbGetData( "SELECT * FROM `schedule`" )
ratings <- dbGetData("SELECT * FROM `ratings`")
strength <- dbGetData("SELECT * FROM `strength`")
for(i in 3:ncol(strength))
{
strength[ , i ] <- as.n... |
\name{NextTable}
\alias{NextTable}
\title{Calculates the table of Kendall distances in (N+1)! space, given those in N!
space.}
\usage{
NextTable(last.table, N.last)
}
\arguments{
\item{last.table}{Table of distances in N! space.}
\item{N.last}{N}
}
\value{
Table of distances in (N+1)! space.
}
\description{
... | /man/NextTable.Rd | no_license | cran/RMallow | R | false | false | 502 | rd | \name{NextTable}
\alias{NextTable}
\title{Calculates the table of Kendall distances in (N+1)! space, given those in N!
space.}
\usage{
NextTable(last.table, N.last)
}
\arguments{
\item{last.table}{Table of distances in N! space.}
\item{N.last}{N}
}
\value{
Table of distances in (N+1)! space.
}
\description{
... |
# Copyright 2016 Google Inc. All Rights Reserved.
#
# 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/licenses/LICENSE-2.0
#
# Unless required by applicable law or a... | /R/aggregate.R | permissive | ovative-group/GeoexperimentsResearch | R | false | false | 1,978 | r | # Copyright 2016 Google Inc. All Rights Reserved.
#
# 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/licenses/LICENSE-2.0
#
# Unless required by applicable law or a... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/summary_sc.R
\name{summary_sc}
\alias{summary_sc}
\title{Summary of indicator performance scores}
\usage{
summary_sc(scores_tbl, crit_scores = INDperform::crit_scores_tmpl)
}
\arguments{
\item{scores_tbl}{The output tibble from the \code{\lin... | /man/summary_sc.Rd | no_license | romainfrancois/INDperform | R | false | true | 1,620 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/summary_sc.R
\name{summary_sc}
\alias{summary_sc}
\title{Summary of indicator performance scores}
\usage{
summary_sc(scores_tbl, crit_scores = INDperform::crit_scores_tmpl)
}
\arguments{
\item{scores_tbl}{The output tibble from the \code{\lin... |
\name{HyperGParams-class}
\docType{class}
%% I don't know where these really belong :-(
\alias{conditional}
\alias{conditional<-}
\alias{geneIds<-}
\alias{ontology}
\alias{ontology<-}
\alias{pvalueCutoff<-}
\alias{testDirection<-}
\alias{universeGeneIds}
%% end :-(
\alias{HyperGParams-class}
\alias{initialize,HyperGP... | /man/HyperGParams-class.Rd | no_license | Bioconductor/Category | R | false | false | 4,698 | rd | \name{HyperGParams-class}
\docType{class}
%% I don't know where these really belong :-(
\alias{conditional}
\alias{conditional<-}
\alias{geneIds<-}
\alias{ontology}
\alias{ontology<-}
\alias{pvalueCutoff<-}
\alias{testDirection<-}
\alias{universeGeneIds}
%% end :-(
\alias{HyperGParams-class}
\alias{initialize,HyperGP... |
#' Microaggregation
#'
#' Function to perform various methods of microaggregation.
#'
#' On \url{http://neon.vb.cbs.nl/casc/Glossary.htm} one can found the
#' \dQuote{official} definition of microaggregation:
#'
#' Records are grouped based on a proximity measure of variables of interest,
#' and the same small groups o... | /R/microaggregation.R | no_license | thijsbenschop/sdcMicro | R | false | false | 38,121 | r | #' Microaggregation
#'
#' Function to perform various methods of microaggregation.
#'
#' On \url{http://neon.vb.cbs.nl/casc/Glossary.htm} one can found the
#' \dQuote{official} definition of microaggregation:
#'
#' Records are grouped based on a proximity measure of variables of interest,
#' and the same small groups o... |
rm(list=ls())
poisson<-function(n){
y<-0:(n-1)
y<-(pi^y/factorial(y))*exp(-pi)
return(1-sum(y))
}
n<-5
poisson(n) | /ex7.R | permissive | LAntoine/DEMI2E2-TPs-R | R | false | false | 119 | r | rm(list=ls())
poisson<-function(n){
y<-0:(n-1)
y<-(pi^y/factorial(y))*exp(-pi)
return(1-sum(y))
}
n<-5
poisson(n) |
Test translator definition with union output
| /test/unittest/translators/tst.UnionOutputTrans.r | permissive | oracle/dtrace-utils | R | false | false | 45 | r | Test translator definition with union output
|
findNum <- function(data, alpha = 0.95, min.frac = 0.05, nlam = 20, type = "linear", num = 5, del = 0.9){
reset <- 10
step <- 1
gamma <- 0.8
inner.iter <- 1000
outer.iter <- 1000
thresh = 10^(-3)
outer.thresh = thresh
n <- nrow(data$x)
if(type == "linear"){
X <- data$x
y <- data$y
n <- nrow(X)
p <- n... | /Experiments/Tibshirani2013/SGL/R/zPathCalcExact.r | no_license | adityagc/MS-Research | R | false | false | 2,087 | r | findNum <- function(data, alpha = 0.95, min.frac = 0.05, nlam = 20, type = "linear", num = 5, del = 0.9){
reset <- 10
step <- 1
gamma <- 0.8
inner.iter <- 1000
outer.iter <- 1000
thresh = 10^(-3)
outer.thresh = thresh
n <- nrow(data$x)
if(type == "linear"){
X <- data$x
y <- data$y
n <- nrow(X)
p <- n... |
fast_SFET <- function(strata, treatment, nsubjects, nresponders,
case, data = NULL, prec = 1e-4, side = c("up")){
nstrata <- strata %>% unique() %>% length()
if (data %>% is.null()) {
indata <- tibble(strata = strata, treatment = treatment, nsubjects = nsubjects,
... | /SFET/R/fast_SFET.R | no_license | KenLi93/Stratified-Fisher-Exact-Test | R | false | false | 4,713 | r | fast_SFET <- function(strata, treatment, nsubjects, nresponders,
case, data = NULL, prec = 1e-4, side = c("up")){
nstrata <- strata %>% unique() %>% length()
if (data %>% is.null()) {
indata <- tibble(strata = strata, treatment = treatment, nsubjects = nsubjects,
... |
117984e2d590475c0e94c743c3c5d79d query64_query51_1344n.qdimacs 1143 2701 | /code/dcnf-ankit-optimized/Results/QBFLIB-2018/E1/Database/Jordan-Kaiser/reduction-finding-full-set-params-k1c3n4/query64_query51_1344n/query64_query51_1344n.R | no_license | arey0pushpa/dcnf-autarky | R | false | false | 72 | r | 117984e2d590475c0e94c743c3c5d79d query64_query51_1344n.qdimacs 1143 2701 |
#########
## Experiment
#########
resdir = 'res/'
assets = c("EURUSD","EURGBP")
filterings = c(6,9,12)
correlations = seq(from=-0.95,to=0.95,by=0.05)
omega0 = 144
source('functions.R')
library(doParallel)
cl <- makeCluster(40)
registerDoParallel(cl)
for(filtering in filterings){
# load data
x1=lpDataFro... | /Models/experiment.R | no_license | zone86/synthetic_data | R | false | false | 2,040 | r |
#########
## Experiment
#########
resdir = 'res/'
assets = c("EURUSD","EURGBP")
filterings = c(6,9,12)
correlations = seq(from=-0.95,to=0.95,by=0.05)
omega0 = 144
source('functions.R')
library(doParallel)
cl <- makeCluster(40)
registerDoParallel(cl)
for(filtering in filterings){
# load data
x1=lpDataFro... |
#devtools::test("asremlPlus")
context("prediction_presentation")
asr41.lib <- "D:\\Analyses\\R ASReml4.1"
cat("#### Test for Intercept prediction on Oats with asreml41\n")
test_that("predict_Intercept4", {
skip_if_not_installed("asreml")
skip_on_cran()
library(asreml, lib.loc = asr41.lib)
library(asr... | /tests/testthat/test41PredictionsPresentation.r | no_license | cran/asremlPlus | R | false | false | 29,280 | r | #devtools::test("asremlPlus")
context("prediction_presentation")
asr41.lib <- "D:\\Analyses\\R ASReml4.1"
cat("#### Test for Intercept prediction on Oats with asreml41\n")
test_that("predict_Intercept4", {
skip_if_not_installed("asreml")
skip_on_cran()
library(asreml, lib.loc = asr41.lib)
library(asr... |
\name{richards}
\alias{richards}
\alias{richards.deriv}
\alias{richards.deriv.x}
\alias{richards.inv}
\alias{solveB}
\alias{solveE}
\title{ Richards functions: Five parameter (5PL) logistic curves }
\description{ The Richards function, the inverse of
the function, and the derivative of \code{richards(x)}
(and... | /man/richards.Rd | no_license | cran/richards | R | false | false | 7,016 | rd | \name{richards}
\alias{richards}
\alias{richards.deriv}
\alias{richards.deriv.x}
\alias{richards.inv}
\alias{solveB}
\alias{solveE}
\title{ Richards functions: Five parameter (5PL) logistic curves }
\description{ The Richards function, the inverse of
the function, and the derivative of \code{richards(x)}
(and... |
## This script needs to be run in the same folder as "exdata-data-household_power_consumption.zip"
## This script outputs a png file, plot4.png for Exploratory Data Analysis Course Project 1
## Unzip Data
unzip("exdata-data-household_power_consumption.zip")
## load files
electricPowerConsumption <- read.table("househ... | /plot4.R | no_license | Luciferase/ExData_Plotting1 | R | false | false | 2,337 | r | ## This script needs to be run in the same folder as "exdata-data-household_power_consumption.zip"
## This script outputs a png file, plot4.png for Exploratory Data Analysis Course Project 1
## Unzip Data
unzip("exdata-data-household_power_consumption.zip")
## load files
electricPowerConsumption <- read.table("househ... |
#load the gene names with the high expression with the mouse names that are not the human names.
total_human_membrane<-read.delim("index/uniprot_human_cellmembrane_Aug2017.tab")
row.names(total_human_membrane)<-total_human_membrane$Entry
total_human_secreted<-read.delim("index/uniprot_human_secreted_Aug2017.tab")
ro... | /ExpressedGenesinCompartment.R | no_license | verma014/Cell-Cell-interaction | R | false | false | 1,401 | r |
#load the gene names with the high expression with the mouse names that are not the human names.
total_human_membrane<-read.delim("index/uniprot_human_cellmembrane_Aug2017.tab")
row.names(total_human_membrane)<-total_human_membrane$Entry
total_human_secreted<-read.delim("index/uniprot_human_secreted_Aug2017.tab")
ro... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/pit.R
\name{pit_df}
\alias{pit_df}
\title{Probability Integral Transformation (data.frame Format)}
\usage{
pit_df(
data,
plot = TRUE,
full_output = FALSE,
n_replicates = 100,
num_bins = NULL,
verbose = FALSE
)
}
\arguments{
\item{... | /man/pit_df.Rd | permissive | elray1/scoringutils | R | false | true | 2,052 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/pit.R
\name{pit_df}
\alias{pit_df}
\title{Probability Integral Transformation (data.frame Format)}
\usage{
pit_df(
data,
plot = TRUE,
full_output = FALSE,
n_replicates = 100,
num_bins = NULL,
verbose = FALSE
)
}
\arguments{
\item{... |
## GENOME UTILS
#' Tag duplicate names by increasing numbers.
#' @param names a vector of characters
#' @export
tagDuplicates <- function(names) {
sel <- paste(names,".1",sep="")
cnt <- 2
while( sum(duplicated(sel)) ) {
sel[duplicated(sel)] <- sub("\\..*",paste(".",cnt,sep=""),
... | /R/coor2index.R | no_license | raim/segmenTools | R | false | false | 26,982 | r | ## GENOME UTILS
#' Tag duplicate names by increasing numbers.
#' @param names a vector of characters
#' @export
tagDuplicates <- function(names) {
sel <- paste(names,".1",sep="")
cnt <- 2
while( sum(duplicated(sel)) ) {
sel[duplicated(sel)] <- sub("\\..*",paste(".",cnt,sep=""),
... |
#' R Markdown format for Distill articles
#'
#' Scientific and technical writing, native to the web.
#'
#' Distill articles feature attractive, reader-friendly typography, flexible
#' layout options for visualizations, and full support for footnotes and
#' citations.
#'
#' @inheritParams rmarkdown::html_document
#'
#... | /R/distill_article.R | permissive | rmflight/distill | R | false | false | 15,831 | r |
#' R Markdown format for Distill articles
#'
#' Scientific and technical writing, native to the web.
#'
#' Distill articles feature attractive, reader-friendly typography, flexible
#' layout options for visualizations, and full support for footnotes and
#' citations.
#'
#' @inheritParams rmarkdown::html_document
#'
#... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/prediction_objects.R
\name{List}
\alias{List}
\title{List Object}
\usage{
List(items = NULL, nextPageToken = NULL, selfLink = NULL)
}
\arguments{
\item{items}{List of models}
\item{nextPageToken}{Pagination token to fetch the next page, if o... | /googlepredictionv16.auto/man/List.Rd | permissive | Phippsy/autoGoogleAPI | R | false | true | 531 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/prediction_objects.R
\name{List}
\alias{List}
\title{List Object}
\usage{
List(items = NULL, nextPageToken = NULL, selfLink = NULL)
}
\arguments{
\item{items}{List of models}
\item{nextPageToken}{Pagination token to fetch the next page, if o... |
##################################################################################
## ADDS "LAND BEAR" STATUS TO ALL.V2 DATABASE ############################
## ############################
##################################################################################
# CREATES TABLE FOR REPRODUCTIV... | /add_land_bear_to_allv2_and_repro_table.R | no_license | anniekellner/ch1_landing | R | false | false | 1,247 | r | ##################################################################################
## ADDS "LAND BEAR" STATUS TO ALL.V2 DATABASE ############################
## ############################
##################################################################################
# CREATES TABLE FOR REPRODUCTIV... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/SegmentedHypTestEngine.R
\name{run_scenario.SegmentedHypTestEngine}
\alias{run_scenario.SegmentedHypTestEngine}
\title{run_scenario.SegmentedHypTestEngine}
\usage{
\method{run_scenario}{SegmentedHypTestEngine}(
segmented_hyp_test_engine,
... | /R/segHT v1.4.0/man/run_scenario.SegmentedHypTestEngine.Rd | no_license | milleratotago/Independent_Segments_R | R | false | true | 1,429 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/SegmentedHypTestEngine.R
\name{run_scenario.SegmentedHypTestEngine}
\alias{run_scenario.SegmentedHypTestEngine}
\title{run_scenario.SegmentedHypTestEngine}
\usage{
\method{run_scenario}{SegmentedHypTestEngine}(
segmented_hyp_test_engine,
... |
parentalSplit <- function(x,expressionChildren,expressionParental,verbose=FALSE, debugMode=0){
if(verbose && debugMode==1)if(x%%100==0)cat("parentalSplit starting withour errors in checkpoint for row:",x,"\n")
s <- proc.time()
expressionParentalRow <- expressionParental[which(rownames(expressionParental) %in% rownam... | /backup/parentalSplit.r | no_license | KonradZych/GBIC2011 | R | false | false | 1,431 | r | parentalSplit <- function(x,expressionChildren,expressionParental,verbose=FALSE, debugMode=0){
if(verbose && debugMode==1)if(x%%100==0)cat("parentalSplit starting withour errors in checkpoint for row:",x,"\n")
s <- proc.time()
expressionParentalRow <- expressionParental[which(rownames(expressionParental) %in% rownam... |
#This program for confirmed and deaths percentages over USA
library(ggplot2)
library(formattable)
prgname = "usa_states_percentages.r"
# # reading the external dataset (covid=19 confirmed and deaths up to 12 June 2020)
cvdata <- read.csv("/home/jayanthikishore/Desktop/SASUniversityEdition/myfolders/COVID-19/USAcovid_... | /R_prg8.r | no_license | Kishore1818/R_programs | R | false | false | 2,104 | r | #This program for confirmed and deaths percentages over USA
library(ggplot2)
library(formattable)
prgname = "usa_states_percentages.r"
# # reading the external dataset (covid=19 confirmed and deaths up to 12 June 2020)
cvdata <- read.csv("/home/jayanthikishore/Desktop/SASUniversityEdition/myfolders/COVID-19/USAcovid_... |
# Sam Welch
# A simple script to determine the possible 1,2,4 and 8 combinations of 8 stressors across 4 categories.
# 7th May 2018
setwd("C:/Users/Sam Welch/Google Drive/ICL Ecological Applications/Project/Scripts")
stressors <- c("Chloramphenicol", "Amoxycillin", "Atrazine", "Metaldehyde", "Copper", "Cadmium", "Benz... | /Scripts/Code/Archive/Combination_Calculator.R | no_license | samawelch/MScProject | R | false | false | 795 | r | # Sam Welch
# A simple script to determine the possible 1,2,4 and 8 combinations of 8 stressors across 4 categories.
# 7th May 2018
setwd("C:/Users/Sam Welch/Google Drive/ICL Ecological Applications/Project/Scripts")
stressors <- c("Chloramphenicol", "Amoxycillin", "Atrazine", "Metaldehyde", "Copper", "Cadmium", "Benz... |
\name{YearEntrez-methods}
\docType{methods}
\alias{YearEntrez-methods}
\alias{YearEntrez,Medline-method}
\title{ ~~ Methods for Function \code{YearEntrez} in Package \pkg{RISmed} ~~}
\description{
~~ Methods for function \code{YearEntrez} in package \pkg{RISmed} ~~
}
\section{Methods}{
\describe{
\item{\code{signatur... | /man/YearEntrez-methods.Rd | no_license | mayunlong89/RISmed | R | false | false | 403 | rd | \name{YearEntrez-methods}
\docType{methods}
\alias{YearEntrez-methods}
\alias{YearEntrez,Medline-method}
\title{ ~~ Methods for Function \code{YearEntrez} in Package \pkg{RISmed} ~~}
\description{
~~ Methods for function \code{YearEntrez} in package \pkg{RISmed} ~~
}
\section{Methods}{
\describe{
\item{\code{signatur... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/iterators.R
\name{igraph-vs-indexing2}
\alias{igraph-vs-indexing2}
\alias{[[.igraph.vs}
\title{Select vertices and show their metadata}
\usage{
\method{[[}{igraph.vs}(x, ...)
}
\arguments{
\item{x}{A vertex sequence.}
\item{...}{Additional a... | /man/igraph-vs-indexing2.Rd | no_license | andresrabinovich/igraph | R | false | true | 2,124 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/iterators.R
\name{igraph-vs-indexing2}
\alias{igraph-vs-indexing2}
\alias{[[.igraph.vs}
\title{Select vertices and show their metadata}
\usage{
\method{[[}{igraph.vs}(x, ...)
}
\arguments{
\item{x}{A vertex sequence.}
\item{...}{Additional a... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/fit.R
\name{ssd_fit_dists}
\alias{ssd_fit_dists}
\title{Fit Distributions}
\usage{
ssd_fit_dists(data, left = "Conc", right = left, weight = NULL,
dists = c("lnorm", "llog", "gompertz", "lgumbel", "gamma", "weibull"),
silent = FALSE)
}
\a... | /man/ssd_fit_dists.Rd | permissive | flor14/ssdtools | R | false | true | 1,875 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/fit.R
\name{ssd_fit_dists}
\alias{ssd_fit_dists}
\title{Fit Distributions}
\usage{
ssd_fit_dists(data, left = "Conc", right = left, weight = NULL,
dists = c("lnorm", "llog", "gompertz", "lgumbel", "gamma", "weibull"),
silent = FALSE)
}
\a... |
# Script to compile the RegMap data.
#
# Before running this script, download the RegMap data from
# bergelson.uchicago.edu/wp-content/uploads/2015/04/call_method_75.tar.gz
# and extract the file call_method_75_TAIR9.csv into the "data" directory.
#
library(methods)
library(data.table)
source("functions.R")
# LOAD SA... | /code/compile.regmap.R | no_license | argdata/R-large-scale | R | false | false | 2,017 | r | # Script to compile the RegMap data.
#
# Before running this script, download the RegMap data from
# bergelson.uchicago.edu/wp-content/uploads/2015/04/call_method_75.tar.gz
# and extract the file call_method_75_TAIR9.csv into the "data" directory.
#
library(methods)
library(data.table)
source("functions.R")
# LOAD SA... |
# 03-layout.R
library(shiny)
ui <- fluidPage(
fluidRow(
column(3),
column(5, sliderInput(inputId = "num",
label = "Choose a number",
value = 25, min = 1, max = 100))
),
fluidRow(
column(4, offset = 8,
plotOutput("hist")
)
)
)
server <- function(input, output) {
output$hist <- ... | /ch04-shiny/shiny.rstudio.com-tutorial/part-3-code/03-layout.R | no_license | spylu/sta141b-notes | R | false | false | 403 | r | # 03-layout.R
library(shiny)
ui <- fluidPage(
fluidRow(
column(3),
column(5, sliderInput(inputId = "num",
label = "Choose a number",
value = 25, min = 1, max = 100))
),
fluidRow(
column(4, offset = 8,
plotOutput("hist")
)
)
)
server <- function(input, output) {
output$hist <- ... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/components.R
\name{list_group_386}
\alias{list_group_386}
\title{Create a Bootstrap 386 list group container}
\usage{
list_group_386(..., width = 4)
}
\arguments{
\item{...}{Slot for \link{list_group_item_386}.}
\item{width}{List group width... | /man/list_group_386.Rd | permissive | bright-spark/shiny386 | R | false | true | 2,241 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/components.R
\name{list_group_386}
\alias{list_group_386}
\title{Create a Bootstrap 386 list group container}
\usage{
list_group_386(..., width = 4)
}
\arguments{
\item{...}{Slot for \link{list_group_item_386}.}
\item{width}{List group width... |
# @file OhdsiRTools.R
#
# Copyright 2020 Observational Health Data Sciences and Informatics
#
# This file is part of OhdsiRTools
#
# 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:/... | /R/OhdsiRTools.R | permissive | rachita-c/OhdsiRTools | R | false | false | 1,052 | r | # @file OhdsiRTools.R
#
# Copyright 2020 Observational Health Data Sciences and Informatics
#
# This file is part of OhdsiRTools
#
# 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:/... |
# format-funs.R
#' Format a numeric vector as currency
#'
#' @export
currency <- function(x, digits = 2) {
signif(x, digits = digits) %>% {
scales::dollar_format()(.)
} %>%
str_replace("\\$-", "-$")
}
#' Format a numeric vector as millions of dollars
#'
#' @export
Mdollar <- function(x, digits = 2) {
... | /R/format-funs.R | permissive | USEPA/ONG-NSPS-OOOOa-Policy-Review-Analysis | R | false | false | 652 | r | # format-funs.R
#' Format a numeric vector as currency
#'
#' @export
currency <- function(x, digits = 2) {
signif(x, digits = digits) %>% {
scales::dollar_format()(.)
} %>%
str_replace("\\$-", "-$")
}
#' Format a numeric vector as millions of dollars
#'
#' @export
Mdollar <- function(x, digits = 2) {
... |
% Generated by roxygen2 (4.1.0): do not edit by hand
% Please edit documentation in R/ripal.R
\name{topPasswords}
\alias{topPasswords}
\title{Extract top "n" passwords from a password list}
\usage{
topPasswords(passwords, n = 10)
}
\arguments{
\item{passwords}{a data frame of passwords}
\item{n}{how many most prevalen... | /man/topPasswords.Rd | permissive | stevecoward/ripal | R | false | false | 637 | rd | % Generated by roxygen2 (4.1.0): do not edit by hand
% Please edit documentation in R/ripal.R
\name{topPasswords}
\alias{topPasswords}
\title{Extract top "n" passwords from a password list}
\usage{
topPasswords(passwords, n = 10)
}
\arguments{
\item{passwords}{a data frame of passwords}
\item{n}{how many most prevalen... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/InfinitySparseMatrix.R
\name{as.InfinitySparseMatrix}
\alias{as.InfinitySparseMatrix}
\title{Convert an object to InfinitySparseMatrix}
\usage{
as.InfinitySparseMatrix(x)
}
\arguments{
\item{x}{An object which can be coerced into InfinitySpar... | /man/as.InfinitySparseMatrix.Rd | permissive | markmfredrickson/optmatch | R | false | true | 445 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/InfinitySparseMatrix.R
\name{as.InfinitySparseMatrix}
\alias{as.InfinitySparseMatrix}
\title{Convert an object to InfinitySparseMatrix}
\usage{
as.InfinitySparseMatrix(x)
}
\arguments{
\item{x}{An object which can be coerced into InfinitySpar... |
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/selection_module.R
\name{selection_module}
\alias{selection_module}
\title{Feature Selection Module}
\usage{
selection_module(CBRMSR, method = c("BIRF", "rknn"))
}
\arguments{
\item{CBRMSR}{A CBRMSR object}
\item{method}{The method for featu... | /man/selection_module.Rd | no_license | bhioswego/CBRMSR | R | false | true | 675 | rd | % Generated by roxygen2: do not edit by hand
% Please edit documentation in R/selection_module.R
\name{selection_module}
\alias{selection_module}
\title{Feature Selection Module}
\usage{
selection_module(CBRMSR, method = c("BIRF", "rknn"))
}
\arguments{
\item{CBRMSR}{A CBRMSR object}
\item{method}{The method for featu... |
\name{geneSim}
\alias{geneSim}
\title{Semantic Similarity Between two Genes}
\usage{
geneSim(gene1, gene2, ont = "MF", organism = "human",
measure = "Wang", drop = "IEA", combine = "BMA")
}
\arguments{
\item{gene1}{Entrez gene id.}
\item{gene2}{Another entrez gene id.}
\item{ont}{One of "MF", "BP", and "C... | /2X/2.14/GOSemSim/man/geneSim.Rd | no_license | GuangchuangYu/bioc-release | R | false | false | 1,777 | rd | \name{geneSim}
\alias{geneSim}
\title{Semantic Similarity Between two Genes}
\usage{
geneSim(gene1, gene2, ont = "MF", organism = "human",
measure = "Wang", drop = "IEA", combine = "BMA")
}
\arguments{
\item{gene1}{Entrez gene id.}
\item{gene2}{Another entrez gene id.}
\item{ont}{One of "MF", "BP", and "C... |
# Sesion 2
pacman::p_load(tidyverse,tidytext,schrute,tm,ggthemes,pals)
mydata <- schrute::theoffice
mydata
################# Frecuencias
stop_words <- stopwords(kind="en")
other_stop <- c("oh","ok","okay","uh","yeah","hey","well")
#ley de zipf
#las palabras que menos importan son las que más frecuentes son
token... | /EjerciciosClases/theOffice-bigrams.R | no_license | nerudista/Curso_Virtual_Text_Mining | R | false | false | 2,138 | r | # Sesion 2
pacman::p_load(tidyverse,tidytext,schrute,tm,ggthemes,pals)
mydata <- schrute::theoffice
mydata
################# Frecuencias
stop_words <- stopwords(kind="en")
other_stop <- c("oh","ok","okay","uh","yeah","hey","well")
#ley de zipf
#las palabras que menos importan son las que más frecuentes son
token... |
createHist <- function(){
hist(as.numeric(OOCM[,11]), main = "Frequency of Death Rates after Heart Attack", xlab = "% of Heart Attack Patients who Die", ylab = "Number of Hospitals")
} | /2 - R Programming/R Programming Week 4 - Final Project/CreateHist.R | no_license | sandyjaugust/Data-Science-Specialization-Coursera | R | false | false | 190 | r | createHist <- function(){
hist(as.numeric(OOCM[,11]), main = "Frequency of Death Rates after Heart Attack", xlab = "% of Heart Attack Patients who Die", ylab = "Number of Hospitals")
} |
library(deSolve)
t <- seq(0, 300, by = 0.01)
init <- c(0, 0.5, 0, 0, 1)
inf_info <- data.frame()
# Protein Stuff
# X[1] = SFT
# X[2] = SP
# X[3] = FA
# X[4] = SFT/SP Ratio
# X[5] = Number of leaves
# X[6] = Change in number of leaves
parms_list <- list(
... | /project_marinara/Tomato_Models/tomato_model.R | no_license | jkhta/Runcie_Lab | R | false | false | 3,208 | r | library(deSolve)
t <- seq(0, 300, by = 0.01)
init <- c(0, 0.5, 0, 0, 1)
inf_info <- data.frame()
# Protein Stuff
# X[1] = SFT
# X[2] = SP
# X[3] = FA
# X[4] = SFT/SP Ratio
# X[5] = Number of leaves
# X[6] = Change in number of leaves
parms_list <- list(
... |
library(ggplot2)
library(reshape2)
library(scales)
args <- commandArgs( trailingOnly = TRUE )
data <- read.csv( args[1], sep=",", header=TRUE )
rownames(data) <- data[,1]
data[,1] <- NULL
x <- data.frame( Sample=names(data), Total_Reads=as.numeric(as.matrix(data["Number_of_input_reads",])), Unique_Reads=as.numeric(a... | /scripts/map_stats.R | no_license | vangalamaheshh/trim_and_align | R | false | false | 1,023 | r | library(ggplot2)
library(reshape2)
library(scales)
args <- commandArgs( trailingOnly = TRUE )
data <- read.csv( args[1], sep=",", header=TRUE )
rownames(data) <- data[,1]
data[,1] <- NULL
x <- data.frame( Sample=names(data), Total_Reads=as.numeric(as.matrix(data["Number_of_input_reads",])), Unique_Reads=as.numeric(a... |
#' Creates an object of class naRes (NA Result)
#'
#' This function takes in an omicsData object, and outputs a list of two data
#' frames, one containing the number of missing values by sample, and the other
#' containing the number of missing values by molecule
#'
#' @param omicsData an object of class "pepData", "pr... | /R/missingval_result.R | permissive | clabornd/pmartR | R | false | false | 4,411 | r | #' Creates an object of class naRes (NA Result)
#'
#' This function takes in an omicsData object, and outputs a list of two data
#' frames, one containing the number of missing values by sample, and the other
#' containing the number of missing values by molecule
#'
#' @param omicsData an object of class "pepData", "pr... |
ggplot(vantazh, aes(y=y2013, x=reorder(type, -y2013)))+geom_bar(stat="identity", fill="#da2028", width=.5)+
xlab("Види транспорту")+
ylab("Одиниці")+
ggtitle("Заголовок")+
labs(subtitle="Підзаголовок", caption="Дані з data.gov.ua")+
theme(
legend.title=element_blank(),
plot.title = element_text(size=2... | /bar.R | no_license | n-mouse/R-templates | R | false | false | 2,366 | r | ggplot(vantazh, aes(y=y2013, x=reorder(type, -y2013)))+geom_bar(stat="identity", fill="#da2028", width=.5)+
xlab("Види транспорту")+
ylab("Одиниці")+
ggtitle("Заголовок")+
labs(subtitle="Підзаголовок", caption="Дані з data.gov.ua")+
theme(
legend.title=element_blank(),
plot.title = element_text(size=2... |
#' Use Redundancy Rule to Simulate Ecological Diversification of a Biota.
#'
#' Implement Monte Carlo simulation of a biota undergoing ecological
#' diversification using the redundancy rule.
#'
#' @param nreps Vector of integers (such as a sequence) specifying sample number
#' produced. Only used when function... | /R/redundancy.R | no_license | cran/ecospace | R | false | false | 7,755 | r | #' Use Redundancy Rule to Simulate Ecological Diversification of a Biota.
#'
#' Implement Monte Carlo simulation of a biota undergoing ecological
#' diversification using the redundancy rule.
#'
#' @param nreps Vector of integers (such as a sequence) specifying sample number
#' produced. Only used when function... |
# Overlap of two densities of circular distributions
# Use ants to test
# dat_common should be loaded
library(circular)
library(sfsmisc)
# test with two time datasets
testdat <- dat_common %>%
filter(site == 'Duke', chamber %in% c(2,3), sp == 'apru')
x1 <- testdat$time[testdat$chamber == 2]
x2 <- testdat$time[te... | /deprecated/testcircular.R | no_license | maryglover/anttime | R | false | false | 2,664 | r | # Overlap of two densities of circular distributions
# Use ants to test
# dat_common should be loaded
library(circular)
library(sfsmisc)
# test with two time datasets
testdat <- dat_common %>%
filter(site == 'Duke', chamber %in% c(2,3), sp == 'apru')
x1 <- testdat$time[testdat$chamber == 2]
x2 <- testdat$time[te... |
library('Matrix')
library(igraph)
library(ggplot2)
library(patchwork)
eX <- readMM('datasets/morphineNeurons/mock/control.mtx')
rownames(eX) <- readLines('datasets/morphineNeurons/mock/controlGenes.tsv')
eX <- rowMeans(eX)
eY <- readMM('datasets/morphineNeurons/morphine/morphine.mtx')
rownames(eY) <- readLines('datas... | /inst/manuscript/EDcomparison.R | no_license | Leonrunning/scTenifoldNet | R | false | false | 3,004 | r | library('Matrix')
library(igraph)
library(ggplot2)
library(patchwork)
eX <- readMM('datasets/morphineNeurons/mock/control.mtx')
rownames(eX) <- readLines('datasets/morphineNeurons/mock/controlGenes.tsv')
eX <- rowMeans(eX)
eY <- readMM('datasets/morphineNeurons/morphine/morphine.mtx')
rownames(eY) <- readLines('datas... |
#' calculate_primary_doctor
#'
#' @param doctor_npi1
#' @param doctor_npi2
#' @param group_reqs
#' @param class_reqs
#' @param specialization_reqs
#'
#' @return
#' @export
#'
#' @examples
calculate_primary_doctor <- function(doctor_npi1,
doctor_npi2,
... | /R/calculate_primary_doctor.R | no_license | utah-osa/hcctools2 | R | false | false | 3,565 | r | #' calculate_primary_doctor
#'
#' @param doctor_npi1
#' @param doctor_npi2
#' @param group_reqs
#' @param class_reqs
#' @param specialization_reqs
#'
#' @return
#' @export
#'
#' @examples
calculate_primary_doctor <- function(doctor_npi1,
doctor_npi2,
... |
graphics.off()
remove(list = ls())
library(ggplot2)
library(cowplot)
library(reshape2)
valeurs <- data.frame(read.csv("MDH2 0.5Xan Xox ph6.55 ttes10s.csv", sep = ';', dec = ".", header = TRUE))
c <- 1:ncol(valeurs[-1])
df <- valeurs[-1][ , c%%6==1]
df <- cbind(df[1:31], valeurs[1])
colnames(df) <- c(c(1:31), "wavele... | /air12/MDH2 0.5Xan Xox ph6.55.R | no_license | CathyCat88/thesis | R | false | false | 715 | r | graphics.off()
remove(list = ls())
library(ggplot2)
library(cowplot)
library(reshape2)
valeurs <- data.frame(read.csv("MDH2 0.5Xan Xox ph6.55 ttes10s.csv", sep = ';', dec = ".", header = TRUE))
c <- 1:ncol(valeurs[-1])
df <- valeurs[-1][ , c%%6==1]
df <- cbind(df[1:31], valeurs[1])
colnames(df) <- c(c(1:31), "wavele... |
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