id stringlengths 40 40 | repo_name stringlengths 5 110 | path stringlengths 2 233 | content stringlengths 0 1.03M ⌀ | size int32 0 60M ⌀ | license stringclasses 15
values |
|---|---|---|---|---|---|
4e350fe7700d43fa68fcbcdd405247b5332a882a | noelnamai/RNeo4j | R/getSinglePath.R | getSinglePath = function(graph, query, ...) UseMethod("getSinglePath")
getSinglePath.default = function(x, ...) {
stop("Invalid object. Must supply graph object.")
}
getSinglePath.graph = function(graph, query, ...) {
stopifnot(is.character(query),
length(query) == 1)
params = list(...)
resul... | 830 | mit |
7b49be15a367a60bd3b3bd444e138f409940077b | scottshepard/datasciencecoursera | ExploratoryDataAnalysis_CourseProject2/plot5.R | # This is a script to produce a plot showing the tons of emissions of PM2.5
# from vehicles in the United States between 1999 and 2008.
# Load the plyr package for the daply function
library(plyr)
# Clear the environment and set the working directory
rm(list=ls())
DataFolder <- "~/code/datasciencecoursera/data/exdata... | 1,039 | mit |
413e87544fd5591f7a0a34d847fb3c9cb177c68f | derekbeaton/outlieRs | Package/R/varHeatmaps.R | varHeatmaps <- function(
dat # output from multiOut$hidden_detail (or any list with contrib, and CorrMat elements)
){
contrib <- dat$Contribs
corrmat <- dat$corrMat
# heatmap of outliers by variable contribution -- hoping to see which variables contribute the most to each outlier
contribOut <- contrib[whic... | 1,569 | gpl-3.0 |
0dd16437fa8857d037b3b305cd92e2d00827b25a | tzerk/EGU2017-PICO | snippets/table_rlumshiny.R | info_table_rlumshiny <- function() {
tags$div(class = "table-responsive",
tags$table(class = "table table-hover table-condensed",
tags$thead(tags$th("QR Code"),
tags$th("Link"),
tags$th("Description")
... | 1,549 | mit |
52953df6a584fc287bc02e050c580286cd4bdae8 | anobel/icd | tests/testthat/test-refactor.R | context("refactor")
test_that("simple cases", {
expect_identical(
refactor(factor("a", levels = "a"), "a"),
factor("a", levels = "a")
)
expect_identical(
refactor(factor(NA, levels = "a"), "a"),
factor(NA, levels = "a")
)
expect_identical(
refactor(factor(NA, levels = "a"), "b"),
fact... | 18,276 | gpl-3.0 |
2532b8b9b8b6397d34f6c676c07ed93a0d06b63a | fingerhuth/NG-POC-resistance | scripts/s_run-model_12dd.R | # for timepoint tp, calculate prevalence, incidence and proportion resistance and their summary statistics (median, mean, lower 50%, upper 50%, lower 95%, upper 95%)
# output: only summary statistics!
# - sus.prev: summary statistics for prevalence
# - sus.inc: summary statistics for incidence
# - sus... | 6,915 | mit |
4c39fa56fe544dcdb4f32c693b11ccdf97aa9b25 | Contosta/vernal-windows | baseflow_peak.R | #
# code by M Green
#
gages = c("01052500", "01064801", "01064500", "01073500", "01092000", "01137500", "01152500", "01161000", "01072800", "01076500", "01082000", "01086000", "01089500", "01094000", "01091000")
doys = matrix(0, length(gages), 4)
for(j in 1:length(gages)){
gage=gages[j]
url=paste("http://waterdata.... | 2,588 | mit |
b198cdd19b8c99f78d9439fbe3650af87c048d25 | mensxmachina/MXM-R-Package | R/testIndZIP.R | testIndZIP = function(target, dataset, xIndex, csIndex, wei = NULL, univariateModels=NULL, hash = FALSE,
stat_hash=NULL, pvalue_hash=NULL)
{
#initialization
#if the test cannot performed succesfully these are the returned values
pvalue = log(1);
stat = 0;
csIndex[ which( is.na(c... | 4,381 | gpl-2.0 |
fd596d22019e255587e246ee17f659dfe5f4772d | EDRN/labcas-pges | biomarker_discovery/bin/SplitCV.R | # Author: Joe Perez-Rogers
# Date: 2014-05-11
# Script to create k-fold cross-validation splits of an expression set object
# Usage: splitCV()
# Input: x=an expression set object, pct=the percentage of samples you want in your test set
# Output:
SplitCV <- function(x,pct=0.20){
data <- c(1:nrow(pData(x)))
refs <- s... | 385 | apache-2.0 |
36b58e63831c58c8b36e029398121aa768e6e555 | nhingo/culture-emotion-attention | GRF1314_Rproj/GRF1314MOODEYE.R | ###SET UP####
#general dir for GRF1314, as other data files are not stored in the R project folder
#for administrative purposes
#because the working dir for an R project, when loaded into Rstudio, is always the folder
#with the R project file, we go up one level to get to the general dir
gendir <- dirname(getwd())
mood... | 8,666 | mit |
73f089bbea5f7de51cd4899f6bdcfec89ada2faa | frichote/replop | CL_code/release/LEA/meta/LEA/R/readEnv.R | read.env <- function(input.file) {
# test arguments
if(missing(input.file))
stop("'input.file' argument is missing.")
else if (!is.character(input.file))
stop("'input.file' argument has to be of type character.")
# check extension
test_extension(input.file, ... | 377 | gpl-3.0 |
84822b429cd1425d2c0287154fb6aa75ee3df7fb | jtrecenti/jurimetria | R/crawler_metadata_ja.R | #' Retorna data.frames com metadados do Justica Aberta.
#'
#' Essa funcao retorna metadados uteis para a pesquisa jurimetrica atraves do sistema
#' Justica Aberta. Dependendo do tipo ("muni", "vara", "prod"), retorna um nivel diferente de
#' metadados. Os parametros ufs, cod_muni e cod_vara ajudam a determinar quai... | 7,281 | mit |
168ef663aa0d0b9b0d1508b0a4d8b3c92dc47782 | jtrecenti/tjspApp | data-raw/load.R | library(dplyr)
library(tidyr)
library(stringr)
library(ggplot2)
# join comarcas e fortified map -----------------------------------------------
data(d_map_sp, package = 'shapefiles')
muda_nomes <- function(d, v, valor1, valor2) {
v <- deparse(substitute(v))
for(i in seq_along(valor1)) d[[v]][d[[v]] == valor1[i]] ... | 8,445 | gpl-2.0 |
66337516dfb6764517e67eeb4242732e74eecb03 | neumannd/WorkingExamples | db/R_TOOLS/emepDB/R/completeFSubstance.RODBC.R | #' private: set a row in the f_substance table as 'complete'
#'
#' Sets the 'complete' boolean of one entry in table 'f_substances'
#' to TRUE. Returns whether it was successful or not. Does not test
#' whether an entry exists, in advance. The database
#' access is provided by 'channel'.
#'
#' @param channel RODBC: h... | 1,321 | gpl-3.0 |
cb7f4e276fb4c2d85900c30924516e3faf3bdba1 | jstagge/paleo_flow_shiny | code/paleo_flow/functions/unit_conv.R | ### This function is applied to columns to modify the units
### New units can be added here as long as they are applied to the original m3/s data
unit_conv <- function(x, new_unit, date, temp_resolution, begin_month=1, end_month=12){
if (new_unit == "cfs"){
x * 35.31467 ### convert m3s to cfs
} else if(new_unit ==... | 2,171 | mit |
4adadf6f466acda1025b006cdaea348871f4043b | jar1karp/rstudio | src/cpp/session/modules/SessionRCompletions.R | #
# SessionRCompletions.R
#
# Copyright (C) 2014 by RStudio, Inc.
#
# Unless you have received this program directly from RStudio pursuant
# to the terms of a commercial license agreement with RStudio, then
# this program is licensed to you under the terms of version 3 of the
# GNU Affero General Public License. This p... | 101,660 | agpl-3.0 |
3b9258e1864fa798b12d433a515a77563a628acd | andrewdefries/andrewdefries.github.io | FDA_Pesticide_Glossary/1,1'-(2,2-dichloroet.R | library("knitr")
library("rgl")
#knit("1,1'-(2,2-dichloroet.Rmd")
#markdownToHTML('1,1'-(2,2-dichloroet.md', '1,1'-(2,2-dichloroet.html', options=c("use_xhml"))
#system("pandoc -s 1,1'-(2,2-dichloroet.html -o 1,1'-(2,2-dichloroet.pdf")
knit2html('1,1'-(2,2-dichloroet.Rmd')
| 276 | mit |
9ec4b0281789ab6700bf3b3d0e152b5923d5abf6 | radfordneal/pqR | src/library/utils/R/utils-deprecated.R | # File src/library/utils/R/utils-deprecated.R
# Part of the R package, http://www.R-project.org
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at ... | 973 | gpl-2.0 |
51443c87a9783c113c46ded1991108d6f10f0a86 | glycerine/bigbird | r-3.0.2/src/library/graphics/R/stripchart.R | # File src/library/graphics/R/stripchart.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; e... | 4,260 | bsd-2-clause |
9ec4b0281789ab6700bf3b3d0e152b5923d5abf6 | hlin09/renjin | packages/utils/src/main/R/utils-deprecated.R | # File src/library/utils/R/utils-deprecated.R
# Part of the R package, http://www.R-project.org
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at ... | 973 | gpl-3.0 |
294486dd91ba9a287505fb1bfce82aa9351481db | irceline/sensorweby | inst/examples/combinedAnalysis/server.R | # Copyright 2014 52°North Initiative for Geospatial Open Source Software GmbH
#
# 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 req... | 6,488 | apache-2.0 |
6809027dc91af66f21bec4d278222596c411128d | mrwizard82d1/DBDA2Eprograms | Jags-Ydich-XnomSsubj-MbernBetaOmegaKappa-Example.R | # Example for Jags-Ydich-XnomSsubj-MbernBetaOmegaKappa.R
#-------------------------------------------------------------------------------
# Optional generic preliminaries:
graphics.off() # This closes all of R's graphics windows.
rm(list=ls()) # Careful! This clears all of R's memory!
#-------------------------... | 3,140 | mit |
6809027dc91af66f21bec4d278222596c411128d | bdetweiler/stat-8416-final-project | DBDA2Eprograms/Jags-Ydich-XnomSsubj-MbernBetaOmegaKappa-Example.R | # Example for Jags-Ydich-XnomSsubj-MbernBetaOmegaKappa.R
#-------------------------------------------------------------------------------
# Optional generic preliminaries:
graphics.off() # This closes all of R's graphics windows.
rm(list=ls()) # Careful! This clears all of R's memory!
#-------------------------... | 3,140 | mit |
51443c87a9783c113c46ded1991108d6f10f0a86 | cxxr-devel/cxxr-svn-mirror | src/library/graphics/R/stripchart.R | # File src/library/graphics/R/stripchart.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; e... | 4,260 | gpl-2.0 |
6670c5847e3ab893902dd7d707557bea9e29ddf6 | mensxmachina/MXM-R-Package | R/testIndLMM.R | testIndLMM <- function(target, reps = NULL, group, dataset, xIndex, csIndex, wei = NULL, univariateModels = NULL,
hash = FALSE, stat_hash = NULL, pvalue_hash = NULL, slopes = FALSE) {
# TESTINDGLMM Conditional Independence Test based on generalised linear mixed models for normal, binary r... | 5,486 | gpl-2.0 |
3b97037784f69b8820db9b82b3dbb5b0d5d3571d | uzh/ezRun | R/app-SCCountQC.R | ###################################################################
# Functional Genomics Center Zurich
# This code is distributed under the terms of the GNU General
# Public License Version 3, June 2007.
# The terms are available here: http://www.gnu.org/licenses/gpl.html
# www.fgcz.ch
EzAppSCCountQC <-
setRefClass... | 8,972 | gpl-3.0 |
1861ecf865f8a2e347b35f28bcd70bc1566b7622 | debarros/RScantron | MasterScript.R | # R/Scantron Interface
# by Paul de Barros (pj.deBarros@gmail.com)
# Repository located at https://github.com/debarros/RScantron
#------------------#
#### Initialize ####
#------------------#
gc() #garbage collection clears data no longer being used from memory
source("functions.R") #load the functions
source("credent... | 6,601 | gpl-2.0 |
789e2f002578aad5adb42b13f7618e2edbf13ce0 | WelkinGuan/r-source | src/library/base/R/datetime.R | # File src/library/base/R/datetime.R
# Part of the R package, https://www.R-project.org
#
# Copyright (C) 1995-2015 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 34,816 | gpl-2.0 |
789e2f002578aad5adb42b13f7618e2edbf13ce0 | nathan-russell/r-source | src/library/base/R/datetime.R | # File src/library/base/R/datetime.R
# Part of the R package, https://www.R-project.org
#
# Copyright (C) 1995-2015 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 34,816 | gpl-2.0 |
789e2f002578aad5adb42b13f7618e2edbf13ce0 | abiyug/r-source | src/library/base/R/datetime.R | # File src/library/base/R/datetime.R
# Part of the R package, https://www.R-project.org
#
# Copyright (C) 1995-2015 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 34,816 | gpl-2.0 |
789e2f002578aad5adb42b13f7618e2edbf13ce0 | LeifAndersen/R | src/library/base/R/datetime.R | # File src/library/base/R/datetime.R
# Part of the R package, https://www.R-project.org
#
# Copyright (C) 1995-2015 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 34,816 | gpl-2.0 |
789e2f002578aad5adb42b13f7618e2edbf13ce0 | andy-thomason/r-source | src/library/base/R/datetime.R | # File src/library/base/R/datetime.R
# Part of the R package, https://www.R-project.org
#
# Copyright (C) 1995-2015 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 34,816 | gpl-2.0 |
789e2f002578aad5adb42b13f7618e2edbf13ce0 | mathematicalcoffee/r-source | src/library/base/R/datetime.R | # File src/library/base/R/datetime.R
# Part of the R package, https://www.R-project.org
#
# Copyright (C) 1995-2015 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 34,816 | gpl-2.0 |
70e8b05b494199efa813d091efb1f786639f6753 | shenlab-sinai/pipelines_for_ChIP-seq_analysis | bin/GO_homer_ggplot2.R | #! /usr/bin/env Rscript
args <- commandArgs(TRUE)
file.path <- args[1]
p.val.cutoff <- as.numeric(args[2])
readGO <- function(file.name, result.path){
x <- read.table(paste(result.path, "/", file.name, sep=""),
stringsAsFactors=FALSE, sep="\t", comment.char="", header=TRUE, quote="", fill=TRUE)
if("P.value" %i... | 2,046 | lgpl-2.1 |
f6c86bce13dc801176f9e56f76cb726a986bd916 | ecor/geotoppoints | inst/examples/postprocessGeotop1dSimulation_latest.R | # file postprocessGeotop1dSimulation.R
#
#
# This file contains a script which plots point value of pressure head or other variables calculated by a GEOtop simulation versus time
#
#
# author: Emanuele Cordano on 19-12-2013
#
#This program is free software: you can redistribute it and/or modify
#it under the terms of... | 5,796 | gpl-2.0 |
d764fcba4dbc670e89d8c632348b1d2a52ba26e1 | spoonbill/nectr | R/clsMRes.R | clsMRes <-
function(data, keep = TRUE, r.start = NA, r.max = Inf, ...) {
mc <- match.call()
dataset.name <- toString(as.list(mc)$data)
#***********************************
# INITIALISATION
#***********************************
r <- 1 #Initialise resolution
i <- 1 ... | 8,593 | gpl-2.0 |
31e305505d972d54d6b2ecb6c4630c037bf7850b | coreyabshire/ivmooc-gtap | motionchart.R | #
# read raw data, cleanup values less than 1mUSD, save as trade.clean
#
library(dplyr)
library(ggplot2)
library(googleVis)
load("trade.clean")
trade <- read.csv("C:/tstrade.csv", header=TRUE,
col.names=c("comm","exp","imp","year","value"),
colClasses=c("factor","factor","fac... | 1,915 | mit |
2dd5e3877167e6a614dce92dfd919eef2badaeec | florianerhard/gedi | GediRiboSeq/src/scripts/start_eval.R |
args=commandArgs(T)
t=read.delim(args[1])
pdf(args[2])
plot(ecdf(t$Posterior))
barplot(table(((t$Posterior>=0.9)+t$Before.in.posterior.bin+t$After.in.posterior.bin)>0,cut(t$Sinh.mean,breaks=c(0,0.1,0.5,1,5,Inf))),beside=T,main="Any >=0.9 per activity bin")
plot(ecdf(t$Before.in.posterior.bin[t$Posterior>=0.9]),main="... | 566 | apache-2.0 |
f327a90e4744be7454b1e20d96895228cf6fbf08 | quadrama/DramaAnalysis | R/report.R | #' @title Report
#' @description generates a report for a specific dramatic text
#' @param id The id of the text or a list of ids
#' @param of The output file
#' @param type The type of the report. "Single" gives a report about a single play,
#' while "Compare" can be used to compare multiple editions of a play. Pleas... | 1,134 | gpl-3.0 |
8f104fc24b7b6968c796bf67de94ed0834c4aa6e | jeremyzechar/csep-italy | simulateCatalogConsistentWithForecast.R | SimConsistentCatalog <- function(n, lambda){
# Simulate a vector of integer quantiles x given the vector of non-negative
# means lambda, normalized such that their sum is unity. the integer
# quantiles should be simulated in a way that is consistent with lambda.
# n is the total number of events to... | 962 | gpl-3.0 |
6f5e2cc80acbc52ecb5b70842fe703b53842c0f6 | b-k/tea-tutorial | edit.R | library(tea)
readSpec("edit.spec")
# Because the data are already clean, let's insert some errors to edit.
dbGetQuery(teaenv$con, "update viewdc \
set pincp=1000 where agep = 12")
dbGetQuery(teaenv$con, "update viewdc \
set schl=22 where agep between 10 and 14 and id%2 == 0")
d... | 340 | unlicense |
abaf7522be00e93b1dfa90366ef12af5b71745c7 | wStockhausen/wtsDisMELSConn | R/extractIndivIDs.R | #'
#'@title Extract unique IDs for individuals from a DisMELS model run
#'
#'@description Function to extract unique IDs for individuals from a DisMELS model run.
#'
#'@param indivConn - individual connectivity file (or dataframe)
#'@param lhsTypeInfo - life stage info list for IBM (req'd if onlySuccessful=... | 4,706 | mit |
4f5a38265e2fd1ba17320fe96f710d112b3a8314 | compops/phd-thesis | example-philips/ex-philips-qpmh2.R | ##############################################################################
##############################################################################
# Example 4.1
# Particle Metropolis-Hastings for Swedish inflation/unemployment
# Reproduces Figure 4.5
#
# Copyright (c) 2016 Johan Dahlin [ johan.dahlin (at) li... | 4,714 | gpl-3.0 |
960e60a91a8653bdf39cd4b464973f416dcd0580 | sammorris81/rare-binary | markdown/dec2015/first-run-sim/dec-sim-5.R | # load packages and source files
rm(list=ls())
options(warn=2)
library(fields)
library(evd)
library(spBayes)
library(fields)
library(SpatialTools)
# library(microbenchmark) # comment out for beowulf
library(mvtnorm)
library(Rcpp)
library(numDeriv)
library(pROC)
Sys.setenv("PKG_CXXFLAGS"="-fopenmp")
Sys.setenv("PKG_LIB... | 7,757 | gpl-2.0 |
a8e8f56f1c9802d3ec38fb1a13edf78cfa42c303 | enbrown/iol-calculations | R/Haigis.R | #' Haigis Formula for Effective Lens Position
#'
#' Calculate IOL effective lens position for emmetropia given axial length (L),
#' anterior chamber depth (ACD), and a lens constant (a0, pACD, or A must be
#' supplied.) If pACD is given, it is converted to an approximate a0 constant.
#' If A is given, it is first c... | 4,124 | agpl-3.0 |
010472a2cea874dd3716f01f0343a254b00d0e94 | rsachse/renetools | R/myfile.R | myfile <-
function(path,file){
out <- paste(path,file,sep="")
out
}
| 72 | gpl-2.0 |
e399386c95aba5f12e1420cc6f5eacdba3568b63 | elahi/cupCorals | bael_recruitSize.R | #################################################
# Author: Robin Elahi
# Date: 150828
# Coral recruit size
# Figure 4
#################################################
library(lme4)
library(ggplot2)
library(AICcmodavg)
#rm(list=ls(all=TRUE)) # removes all previous material from R's memory
source("./R/graphicalPara... | 3,219 | mit |
78ac3f62624d5c108fd0d5d070cd5698c08ffd76 | wStockhausen/rTCSAM2013 | R/plotData.R | #'
#'@title Function to plot TCSAM2013 input data from a .R file
#'
#'@description This function plots input data to TCSAM2013 from a .R output file
#'
#'@details Creates a set of plots (in a pdf file, if desired) from a TCSAM2013 .R
#'output file.
#'
#'@param lst - the data list object
#'@param fn - the file
#'@param... | 1,877 | mit |
ef6af080fab9a0545fa7ebad1eda3cd5df1f806f | cran/magclass | tests/testthat/test-collapseDim.R | context("CollapseDim Test")
test_that("arguments (dim and keepdim) work", {
x <- maxample("animal")
expect_identical(x, collapseDim(x, keepdim = c(2.3, 3.1)))
expect_identical(collapseDim(x), collapseDim(x, dim = c(3.1, 2.3)))
expect_identical(getItems(collapseDim(x[, , "rabbit"]), dim = 3), c("black", "white"... | 1,602 | lgpl-3.0 |
31216299de854b6a02cb0f8203c2d3bec0c62f2f | mghandi/gkmSVM | R/gkmsvm_trainCV.R |
# repeated CV
# nCV: number of CV folds
# nrepeat: number of repeated CVs
# cv: CV group label. An array of length (npos+nneg), containing CV group number (between 1 an nCV) for each sequence. (optional)
# C: a vector of all values of C (SVM parameter) to be tested. (optinal)
# showPlots: generate plots (default==TRU... | 9,552 | gpl-3.0 |
7a32f8b6879e37ac97dfd0084f3fc0bfb5907286 | kosukeimai/FindIt | R/FindIt-package.R | #' FindIt: Finding Heterogeneous Treatment Effects
#'
#' \tabular{ll}{ Package: \tab factorEx\cr Type: \tab Package\cr Version: \tab 1.1.5\cr
#' Date: \tab 2019-11-19\cr}
#'
#' @name FindIt-package
#' @aliases FindIt-package CreateWeights CreatelevelIndex lengthSlack Lcombinefunction
#' PsyConstraintCombine CreateWeigh... | 5,583 | gpl-2.0 |
ef6af080fab9a0545fa7ebad1eda3cd5df1f806f | pik-piam/magclass | tests/testthat/test-collapseDim.R | context("CollapseDim Test")
test_that("arguments (dim and keepdim) work", {
x <- maxample("animal")
expect_identical(x, collapseDim(x, keepdim = c(2.3, 3.1)))
expect_identical(collapseDim(x), collapseDim(x, dim = c(3.1, 2.3)))
expect_identical(getItems(collapseDim(x[, , "rabbit"]), dim = 3), c("black", "white"... | 1,602 | lgpl-3.0 |
6fe1a028d1bb1479a92b7957bbd4fad65a937d80 | jminnier/STARTapp | server-analysisres.R | ## ==================================================================================== ##
# START Shiny App for analysis and visualization of transcriptome data.
# Copyright (C) 2016 Jessica Minnier
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Publi... | 4,988 | gpl-3.0 |
e6813ba116283a06594f4820566f426964f78f2a | flaneuse/llamar | R/check_font.R | #' @title Checks font is installed in the system
#'
#'
#' @description
#' Checks if a given font is installed in the system.
#'
#' @param font_name string containing the font name
#'
#'
# @import extrafont
#' @examples
#' check_font('Arial')
#' check_font('ARIAL')
#' replace_font('ARIAL') # Returns 'sans'
#' @d... | 916 | mit |
a97b9017dcc1562a47cc4edd648459a0445622cf | kogreger/AAU2015 | Scripts/script07.R | #' Workshop on analysing spatial point patterns with spatstat
#' Aalborg, April 2015
#'
#' Lecturer's R script
#' Session 7: Envelopes and Monte Carlo tests
#'
#' Copyright (c) Adrian Baddeley and Ege Rubak 2015
#'
library(spatstat)
set.seed(42)
ind... | 978 | gpl-2.0 |
032718f4d638f846642f230f78032fa1bea3290e | Chr96er/shinyUtils | R/shinyUtilities.R | #'@import shiny
library(shiny)
#'@export
manual <- function(text) {
h4(text, style = "font-style: italic;
font-weight: 20; line-height: 1;
color: #888888;")
}
#'@export
htmlStyle <- function() {
tags$head(tags$style("html * {font-family: palanquin;}"))
}
#'@export
styledDiv <- function(text, style) {
... | 4,387 | gpl-3.0 |
a97b9017dcc1562a47cc4edd648459a0445622cf | spatstat/AAU2015 | Scripts/script07.R | #' Workshop on analysing spatial point patterns with spatstat
#' Aalborg, April 2015
#'
#' Lecturer's R script
#' Session 7: Envelopes and Monte Carlo tests
#'
#' Copyright (c) Adrian Baddeley and Ege Rubak 2015
#'
library(spatstat)
set.seed(42)
ind... | 978 | gpl-2.0 |
3e980d0b5e8fefbd81a7ec2d37f6be9de6b7b66a | ktoddbrown/soilDataR | R/convertKeyedData.R | #' Convert data tables
#'
#' This function converts a set of data tables from a specified format to a keyed format
#' including renaming variables.
#'
#' @param data.ls list containing the data tables specified in the key
#' @param key.df the key or look-up table that converts one formate to another
#' @param return... | 7,721 | bsd-2-clause |
9c0dff46a11d35f5e5926874936632a46734a6eb | JasperHG90/qualtRics | vignettes/qualtRics.R | ## ----setup, include = FALSE----------------------------------------------
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>"
)
## ---- echo=FALSE, out.width="80%"----------------------------------------
knitr::include_graphics("https://raw.githubusercontent.com/ropensci/qualtRics/master/img/config_step1.png"... | 692 | gpl-3.0 |
5a0bd27d58e49b35148d2883828fa3006d3aea0a | JuKa87/OpenMx | inst/models/passing/Acemix.R | #
# Copyright 2007-2015 The OpenMx Project
#
# 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 ... | 4,444 | apache-2.0 |
b88feeeea8825202e7615065ea1420b82211fd2c | DataDrivenInc/R4DSXML | R4DSXML/tests/testthat.R | library(testthat)
library(R4DSXML)
test_check("R4DSXML")
| 58 | lgpl-3.0 |
058f3e70c428b0b6896459eb654856a162fcd5af | ktoddbrown/FTICR_Processing | R/countCompoundTypes.R | #' Convert FT-ICR data to counts of compound classes
#'
#' To convert FT-ICR intensity to compound classes, this function 1) discards masses that are of 0 intensity
#' 2) counts the number of masses for each sample which fall between specified C:H:O ratios which define the following
#' compound classes: (lipids, u... | 9,355 | mit |
3aebb74c3fc8d87b39ed491d3485e28bf7d5e051 | Martin-Jung/marfunky | R/dms_dd.R | #' Convert degrees minutes seconds to decimal degrees:
#'@author Andy Teucher
#'@param x: a vector containing the lat or long with elements separated by single character
#'@param sep: the character separating the degrees, minutes, seconds (default ":")
#'@param hem: the hemisphere ("N","S","E","W"). Assumes all coords ... | 762 | gpl-2.0 |
5bd7bb529da931cc320f913ab94b087ef1922806 | tdda/tdda | tdda/gentest/examples/r-examples/0-set-variables.R | # Set up R files for running scripts
# working directory.
# Load data into R
site.species <- read.delim("site.species.txt")
site.species.or <- read.delim("site.species.or.txt")
env.data <- read.delim("env.data.txt")
env.data.or <- read.delim("env.data.or.txt")
# refids <- read.delim("refids.or.txt")
# Merge biologic... | 541 | mit |
bfcc3322b25039ea5355dda2ab96bef1d4bdcc42 | ColumbusCollaboratory/electron-quick-start | R-Portable-Win/library/gridExtra/doc/tableGrob.R | ## ----setup, echo=FALSE, results='hide'-----------------------------------
library(knitr)
opts_chunk$set(message=FALSE, fig.width=4, fig.height=2)
## ----basic---------------------------------------------------------------
library(gridExtra)
library(grid)
d <- head(iris[,1:3])
grid.table(d)
## ----annotations, fig.h... | 6,905 | cc0-1.0 |
bfcc3322b25039ea5355dda2ab96bef1d4bdcc42 | ColumbusCollaboratory/electron-quick-start | R-Portable-Mac/library/gridExtra/doc/tableGrob.R | ## ----setup, echo=FALSE, results='hide'-----------------------------------
library(knitr)
opts_chunk$set(message=FALSE, fig.width=4, fig.height=2)
## ----basic---------------------------------------------------------------
library(gridExtra)
library(grid)
d <- head(iris[,1:3])
grid.table(d)
## ----annotations, fig.h... | 6,905 | cc0-1.0 |
dc5f303626475a2a24679c7e4611658de53ada29 | manuelreif/PP | R/lz.R | # LZ-Statistik
lz <- function( data,
thetas,
betas,
lowerAs=NULL,
slopes=NULL,
higherAs=NULL,...){
if(is.null(slopes)) slopes <- rep(1,length(betas))
if(is.null(lowerAs))lowerAs <- rep(0,length(betas))
if(is.null(higherAs))higher... | 1,290 | gpl-3.0 |
8e053505d7acfc1a3b6f0edba561fbfc3ff1707e | Frogee/SorghumReconstructionAndPhenotyping | McCormickTruongMullet2016_manuscriptSupplemental/multipleQTLMapping/seg_independent/X08.03_total_surface_area_Average_Normalized_multiple-QTL.R | # Estimate QTL using multiple mapping with R/qtl package
# (Much of this code originates from rqtl.org tutorials.)
working_directory = getwd()
if (!is.null(working_directory)) setwd(input_file_directory)
# load in cross (cross_inputcross)
load("/home/skt/Documents/Image-based_phenotyping_RFM/2016-06/01_cross_object... | 3,841 | gpl-3.0 |
8be5c7f08a834b62f2f8be9c32e445864033f6a7 | uzh/ezRun | script/archived-scripts/app-DADA2Step2Dataset.R | ###################################################################
# Functional Genomics Center Zurich
# This code is distributed under the terms of the GNU General
# Public License Version 3, June 2007.
# The terms are available here: http://www.gnu.org/licenses/gpl.html
# www.fgcz.ch
ezMethodDADA2Step2Dataset = fu... | 3,121 | gpl-3.0 |
541bdff2b2af33b07031d0eba8d7f3715d7c9fc8 | VUEG/priocomp | tests/test_gurobi_full_data.R | #!/usr/bin/env r
library(magrittr)
library(prioritizr)
library(raster)
#library(rasterVis)
#library(viridis)
# Set raster options
rasterOptions(tmpdir = "/data/tmp/raster",
progress = "text",
chunksize = 100000000,
maxmemory = 200000000)
# Start load timer
load_start <- Sys.... | 2,125 | mit |
2064b859f28a4571e9c7d52d6bc5edd37837ed49 | Beirnaert/MetaboMeeseeks | R/batchPeakFilling.R | #' Function to do peak filling (xcms) with restored RT values
#'
#'
#'
#' @param xcmsObject XCMS object to be peak filled
#' @param unStructureBatchesObject XCMS object after retrieved after the unStructureBatches function
#'
#'
#' @return xcmsObject A peak filled xcms object
#'
#' @author Charlie Beirnaert, \emai... | 640 | apache-2.0 |
2ad8d667f381410a1befed4047b97c58a06c4716 | cran/GWAtoolbox | R/PLOT.R | #
# Copyright © 2011 Daniel Taliun, Christian Fuchsberger and Cristian Pattaro. All rights reserved.
#
# This file is part of GWAtoolbox.
#
# GWAtoolbox is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either v... | 6,433 | gpl-3.0 |
707eef711574b2ce72f805965b5f97ed962c2b11 | CuppenResearch/MutationalPatterns | R/merge_signatures.R | #' Merge signatures based on cosine similarity
#'
#' This function merges signatures based on their cosine similarity.
#' It iteratively merges the two signatures with the highest cosine similarity.
#' Merging is stopped when the maximum cosine similarity is lower than the limit.
#'
#' @param signatures Signature matri... | 3,300 | mit |
2207d2abe105f222091764c6aebbca172c955371 | Ryman/Comparison-Programming-Languages-Economics | RBC_Rcpp.R | ## 0. Housekeeping
rm(list=ls())
ptm <- proc.time()
## 1. Calibration
aalpha = 1/3; # Elasticity of output w.r.t. capital
bbeta = 0.95; # Discount factor
# Productivity values
vProductivity <- c(0.9792, 0.9896, 1.0000, 1.0106, 1.0212);
# Transition matrix
mTransition <- c(0.9727, 0.0273, 0.0000, 0.0000, 0... | 2,528 | mit |
001df78f97d0b34ce01c9d43a5fed363573e0af9 | andrewejaffe/winterR_2017 | Data_Cleaning/lecture/scratch.R | NA
x = c(0, NA, 2, 3, 4)
x = c(5,5,0,NA,0, 0, 1,2,2,2,2,4)
unique(x)
table(x)
## white space
y = c("Male", "Male ", " Male")
y
table(y)
library(stringr)
str_trim(y)
table(x,useNA="ifany")
table(x[!is.na(x)],useNA="always")
tab <- table(c(0, 1, 2, 3, 2, 3, 3, 2,2, 3),
c(0, 1, 2, 3, 2, 3, 3, 4, 4, 3)... | 458 | mit |
2207d2abe105f222091764c6aebbca172c955371 | jesusfv/Comparison-Programming-Languages-Economics | RBC_Rcpp.R | ## 0. Housekeeping
rm(list=ls())
ptm <- proc.time()
## 1. Calibration
aalpha = 1/3; # Elasticity of output w.r.t. capital
bbeta = 0.95; # Discount factor
# Productivity values
vProductivity <- c(0.9792, 0.9896, 1.0000, 1.0106, 1.0212);
# Transition matrix
mTransition <- c(0.9727, 0.0273, 0.0000, 0.0000, 0... | 2,528 | mit |
2207d2abe105f222091764c6aebbca172c955371 | tomooinoue/Comparison-Programming-Languages-Economics | RBC_Rcpp.R | ## 0. Housekeeping
rm(list=ls())
ptm <- proc.time()
## 1. Calibration
aalpha = 1/3; # Elasticity of output w.r.t. capital
bbeta = 0.95; # Discount factor
# Productivity values
vProductivity <- c(0.9792, 0.9896, 1.0000, 1.0106, 1.0212);
# Transition matrix
mTransition <- c(0.9727, 0.0273, 0.0000, 0.0000, 0... | 2,528 | mit |
2207d2abe105f222091764c6aebbca172c955371 | lexu1upenn/Comparison-Programming-Languages-Economics | RBC_Rcpp.R | ## 0. Housekeeping
rm(list=ls())
ptm <- proc.time()
## 1. Calibration
aalpha = 1/3; # Elasticity of output w.r.t. capital
bbeta = 0.95; # Discount factor
# Productivity values
vProductivity <- c(0.9792, 0.9896, 1.0000, 1.0106, 1.0212);
# Transition matrix
mTransition <- c(0.9727, 0.0273, 0.0000, 0.0000, 0... | 2,528 | mit |
2207d2abe105f222091764c6aebbca172c955371 | agutieda/Comparison-Programming-Languages-Economics | RBC_Rcpp.R | ## 0. Housekeeping
rm(list=ls())
ptm <- proc.time()
## 1. Calibration
aalpha = 1/3; # Elasticity of output w.r.t. capital
bbeta = 0.95; # Discount factor
# Productivity values
vProductivity <- c(0.9792, 0.9896, 1.0000, 1.0106, 1.0212);
# Transition matrix
mTransition <- c(0.9727, 0.0273, 0.0000, 0.0000, 0... | 2,528 | mit |
2207d2abe105f222091764c6aebbca172c955371 | mseri/Comparison-Programming-Languages-Economics | RBC_Rcpp.R | ## 0. Housekeeping
rm(list=ls())
ptm <- proc.time()
## 1. Calibration
aalpha = 1/3; # Elasticity of output w.r.t. capital
bbeta = 0.95; # Discount factor
# Productivity values
vProductivity <- c(0.9792, 0.9896, 1.0000, 1.0106, 1.0212);
# Transition matrix
mTransition <- c(0.9727, 0.0273, 0.0000, 0.0000, 0... | 2,528 | mit |
2207d2abe105f222091764c6aebbca172c955371 | sangonz/Comparison-Programming-Languages-Economics | RBC_Rcpp.R | ## 0. Housekeeping
rm(list=ls())
ptm <- proc.time()
## 1. Calibration
aalpha = 1/3; # Elasticity of output w.r.t. capital
bbeta = 0.95; # Discount factor
# Productivity values
vProductivity <- c(0.9792, 0.9896, 1.0000, 1.0106, 1.0212);
# Transition matrix
mTransition <- c(0.9727, 0.0273, 0.0000, 0.0000, 0... | 2,528 | mit |
d572db261312419730362a6745db7b766ce54505 | david-salgado/StQ | R/sub.rawStQ.R | C#' @title Extract parts of an object of class \linkS4class{rawStQ}
#'
#' @description \code{[} extracts parts of an object of class \linkS4class{rawStQ}.
#'
#' It is indeed the method \code{[} for the class \linkS4class{rawStQ}. This method returns subsets
#' of the slot \code{Data} from an object of class \linkS4cla... | 1,733 | lgpl-3.0 |
be11c25ca0b345c92ca3af392681e5a14b5b6fa4 | jedrake/wtc4_heatwave | R/loadLibraries.R | #--------------------------------------------------------------
#- This script loads required R libraries and creates some
# custom functions for downloading and plotting data.
#--------------------------------------------------------------
#- create data and output directories, if they do not exist
if(!dir.exists("... | 5,333 | gpl-3.0 |
c54319a7b678c1fb262fd1999a6f45c4ece8d9ad | SchlossLab/Sze_FollowUps_Microbiome_2017 | code/Run_crc_reduced_best_model.R | ### Reduced model finalized model generation
### get the best mtry and build final model with all data on reduced data set
## Marc Sze
#Load needed libraries
source('code/functions.R')
loadLibs(c("dplyr", "caret","scales", "wesanderson", "randomForest", "pROC"))
# Read in necessary data frames
test_data ... | 5,150 | mit |
8449ae1d18f7f852eb24983058a322e2f387eade | burjandedes/randomForestDrawer | R/getColorForClass.R | #' Get color for a class
#'
#' Get color for a factor's class based on the parameter values.
#'
#' This is basically a LUT, which finds the proper color for a factor's class.
#' We can add the \code{classes}, the \code{colors} or a \code{defaultColor}.
#' @param classValue The caller wants a color for this class.
#' @p... | 1,440 | gpl-3.0 |
d0fdd7dfff71f2d92b11e910f3c52826a044c350 | andpet0101/deepseq-snakepipes | R/summarise_miRNA_analysis.R | #!/usr/bin/env Rscript
# reorders the library paths so that user paths will be the last place to look for libraries
lib_paths = .libPaths()
home_last_order = order(grepl('^/home',.libPaths()))
.libPaths(lib_paths[home_last_order])
library(ggplot2)
library(plyr)
library(dplyr)
library(magrittr)
library(tidyr)
library... | 27,119 | mit |
370eb29f7c74d6a132d377c1ec6f42c571321516 | thomasevans/lbbg_gps | trip_departure_decision.R | # Primarily developed by Tom Evans at Lund University: tom.evans@biol.lu.se
# You are welcome to use parts of this code, but please give credit when using it extensively.
# This script is to compile and collate various variables
# related to foraging trip type descisions, whether to forage
# at sea or on Gotland. It w... | 7,343 | gpl-2.0 |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | hxfeng/R-3.1.2 | src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
6742032a9c992d5643e243c8ce8a25fc877cb4d6 | chipster/chipster-tools | tools/microarray/R/plot-boxplot.R | # TOOL plot-boxplot.R: Boxplot (Creates a boxplot of normalized data. One box per chip is plotted.)
# INPUT normalized.tsv: normalized.tsv TYPE GENE_EXPRS
# INPUT META phenodata.tsv: phenodata.tsv TYPE GENERIC
# OUTPUT boxplot.png: boxplot.png
# PARAMETER column: Column TYPE METACOLUMN_SEL DEFAULT group (Phenodata c... | 2,367 | mit |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | jagdeesh109/RRO | R-src/src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | glycerine/bigbird | r-3.0.2/src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | bsd-2-clause |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | hadley/r-source | src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
4a77c8c726231206bbc0f0971d7f63b0544976f9 | JimDuggan/SDMR | workshops/08 Uni Koc Workshop/models/01 deSolve/02b SIR.R | # Example 2(b) using the readsdr package to develop the deSolve code in R
library(readsdr)
library(deSolve)
library(dplyr)
filepath <- "workshops/08 Uni Koc Workshop/models/01 deSolve/SIR.stmx"
mdl <- read_xmile(filepath)
simtime <- seq(mdl$deSolve_components$sim_params$start,
mdl$deSolve_compon... | 790 | mit |
2b54578411ec63f75c43c9bde5945894b83e01ad | bedatadriven/renjin | tests/src/test/R/test.as.double.R | #
# Renjin : JVM-based interpreter for the R language for the statistical analysis
# Copyright © 2010-2018 BeDataDriven Groep B.V. and contributors
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundati... | 7,367 | gpl-2.0 |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | mirror/r | src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | jeffreyhorner/R-Judy-Arrays | src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | skyguy94/R | src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | o-/Rexperiments | src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | patperry/r-source | src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
bcb9e4579d9610cbac763c3f0f94654a9b35f36d | cmosetick/RRO | R-src/src/library/graphics/R/stars.R | # File src/library/graphics/R/stars.R
# Part of the R package, http://www.R-project.org
#
# Copyright (C) 1995-2012 The R Core Team
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either... | 7,829 | gpl-2.0 |
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