Back to Build/check report for BioC 3.17
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This page was generated on 2023-02-23 01:33:54 -0000 (Thu, 23 Feb 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4245
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for debrowser on kunpeng1


To the developers/maintainers of the debrowser package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/debrowser.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 478/2164HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
debrowser 1.27.1  (landing page)
Alper Kucukural
Snapshot Date: 2023-02-21 12:29:53 -0000 (Tue, 21 Feb 2023)
git_url: https://git.bioconductor.org/packages/debrowser
git_branch: master
git_last_commit: dc27555
git_last_commit_date: 2023-02-20 19:24:20 -0000 (Mon, 20 Feb 2023)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  OK    OK    OK  

Summary

Package: debrowser
Version: 1.27.1
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:debrowser.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings debrowser_1.27.1.tar.gz
StartedAt: 2023-02-22 03:31:29 -0000 (Wed, 22 Feb 2023)
EndedAt: 2023-02-22 03:48:10 -0000 (Wed, 22 Feb 2023)
EllapsedTime: 1000.5 seconds
RetCode: 0
Status:   OK  
CheckDir: debrowser.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:debrowser.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings debrowser_1.27.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/debrowser.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘debrowser/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘debrowser’ version ‘1.27.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘debrowser’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
checkCountData : <anonymous>: no visible binding for global variable
  ‘err’
debrowserdataload: no visible binding for global variable ‘demodata’
debrowserhistogram: no visible global function definition for ‘config’
getBarMainPlot: no visible global function definition for ‘config’
getBoxMainPlot: no visible global function definition for ‘config’
getDensityPlot: no visible binding for global variable ‘samples’
getDensityPlot: no visible global function definition for ‘config’
getGOPlots: no visible global function definition for ‘facet_grid’
getGSEA: no visible global function definition for ‘is’
getIQRPlot: no visible global function definition for ‘config’
mainScatterNew: no visible global function definition for ‘config’
plot_pca: no visible binding for global variable ‘x’
plot_pca: no visible binding for global variable ‘y’
plot_pca: no visible binding for global variable ‘textName’
plot_pca: no visible global function definition for ‘config’
runHeatmap: no visible global function definition for ‘config’
Undefined global functions or variables:
  config demodata err facet_grid is samples textName x y
Consider adding
  importFrom("methods", "is")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘test-demo.R’
  Running ‘test-deseq.R’
  Running ‘test-null.R’
  Running ‘test-ui.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘DEBrowser.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.17-bioc/meat/debrowser.Rcheck/00check.log’
for details.

Installation output

debrowser.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL debrowser
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’
* installing *source* package ‘debrowser’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (debrowser)

Tests output

debrowser.Rcheck/tests/test-demo.Rout


R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> require(shiny)
Loading required package: shiny
> library(debrowser)



##############################################################################
Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html. Particullary, users are required to
formally cite the original Pathview paper (not just mention it) in publications
or products. For details, do citation("pathview") within R.

The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG
license agreement (details at http://www.kegg.jp/kegg/legal.html).
##############################################################################
DEBrowser v1.27.1  For help: https://debrowser.readthedocs.org/

If you use DEBrowser in published research, please cite:

Alper Kucukural, Onur Yukselen, Deniz M. Ozata, Melissa J. Moore, Manuel Garber
DEBrowser: Interactive Differential Expression Analysis and Visualization Tool for Count Data
BMC Genomics 2019 20:6

doi:0.1186/s12864-018-5362-x

> library(testthat)
> 
> test_that("demo data can be loaded", {
+     load(system.file("extdata", "demo", "demodata.Rda",
+         package = "debrowser"))
+     expect_true(is.data.frame(demodata))
+     expect_equal(demodata[29311, 2], 2)
+     expect_equal(demodata[29311, 5], 7.1)
+     expect_equal(demodata[29311, 6], 6)
+     expect_null(demodata[1, 7])
+ })
Test passed 😸
> 
> proc.time()
   user  system elapsed 
 15.854   0.762  16.600

debrowser.Rcheck/tests/test-deseq.Rout


R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(debrowser)



##############################################################################
Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html. Particullary, users are required to
formally cite the original Pathview paper (not just mention it) in publications
or products. For details, do citation("pathview") within R.

The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG
license agreement (details at http://www.kegg.jp/kegg/legal.html).
##############################################################################
DEBrowser v1.27.1  For help: https://debrowser.readthedocs.org/

If you use DEBrowser in published research, please cite:

Alper Kucukural, Onur Yukselen, Deniz M. Ozata, Melissa J. Moore, Manuel Garber
DEBrowser: Interactive Differential Expression Analysis and Visualization Tool for Count Data
BMC Genomics 2019 20:6

doi:0.1186/s12864-018-5362-x

> library(testthat)
> 
> load(system.file("extdata", "demo", "demodata.Rda",
+     package = "debrowser"))
> metadata <- metadatatable 
> columns <- c("exper_rep1", "exper_rep2", "exper_rep3",
+     "control_rep1", "control_rep2", "control_rep3")
> conds <- factor( c("Control", "Control", "Control",
+     "Treat", "Treat", "Treat") )
> data <- data.frame(demodata[, columns])
> 
> #Run DESeq2 with the following parameters
> params <- c("DESeq2", "NoCovariate", "parametric", F, "Wald", "None") 
> non_expressed_cutoff <- 10
> data <- subset(data, rowSums(data) > 10)
> test_that("Able to run DESeq2", {
+     deseqrun <- runDE(data, metadata, columns, conds, params)
+     expect_true(exists("deseqrun"))
+ })
Test passed 😸
> 
> ##################################################
> deseqrun <- runDE(data, metadata, columns, conds, params)
estimating size factors
estimating dispersions
gene-wise dispersion estimates
mean-dispersion relationship
final dispersion estimates
fitting model and testing
> 
> de_res <- data.frame(deseqrun)
> norm_data <- getNormalizedMatrix(data[, columns])
> rdata <- cbind(rownames(de_res), norm_data[rownames(de_res), columns],
+                 log10(rowMeans(norm_data[rownames(de_res),
+                 paste(c("exper_rep1", "exper_rep2", "exper_rep3"))])
+                 + 0.1), log10( rowMeans( norm_data[ rownames( de_res ),
+                 paste(c("control_rep1", "control_rep2", "control_rep3"))])
+                 + 0.1), de_res[rownames(de_res),
+                 c("padj", "log2FoldChange")], 2 ^ de_res[rownames(de_res),
+                 "log2FoldChange"], -1 *
+                 log10(de_res[rownames(de_res), "padj"]))
> colnames(rdata) <- c("ID", columns, "Cond1", "Cond2", "padj",
+                 "log2FoldChange", "foldChange", "log10padj")
> rdata <- as.data.frame(rdata)
> rdata$padj[is.na(rdata$padj)] <- 1
> 
> padj_cutoff <- 0.01
> foldChange_cutoff <- 2
> 
> rdata$Legend <- character(nrow(rdata))
> rdata$Legend[rdata$log2FoldChange > log2(foldChange_cutoff) &
+         rdata$padj < padj_cutoff] <- "Up"
> rdata$Legend[rdata$log2FoldChange < log2(1 / foldChange_cutoff) &
+         rdata$padj < padj_cutoff] <- "Down"
> rdata$Legend[abs(rdata$log2FoldChange) <= 
+         log2(foldChange_cutoff)] <- "NS"
> rdata$Legend[is.null(rdata$log10padj)] <- "NA"
> rdata$Size <- character(nrow(rdata))
> rdata[, "Size"] <- "40"
> 
> dat <- rdata
> dat$M <- rdata$Cond1 - rdata$Cond2
> dat$A <- (rdata$Cond1 + rdata$Cond2) / 2
> 
> updown <- rdata[rdata$Legend=="Up" | rdata$Legend=="Down",columns]
> ##################################################
> 
> 
> 
> proc.time()
   user  system elapsed 
 40.613   1.269  41.868

debrowser.Rcheck/tests/test-null.Rout


R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> require(shiny)
Loading required package: shiny
> library(debrowser)



##############################################################################
Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html. Particullary, users are required to
formally cite the original Pathview paper (not just mention it) in publications
or products. For details, do citation("pathview") within R.

The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG
license agreement (details at http://www.kegg.jp/kegg/legal.html).
##############################################################################
DEBrowser v1.27.1  For help: https://debrowser.readthedocs.org/

If you use DEBrowser in published research, please cite:

Alper Kucukural, Onur Yukselen, Deniz M. Ozata, Melissa J. Moore, Manuel Garber
DEBrowser: Interactive Differential Expression Analysis and Visualization Tool for Count Data
BMC Genomics 2019 20:6

doi:0.1186/s12864-018-5362-x

> library(testthat)
> 
> test_that("passing no data returns NULL", {
+     expect_null(compareClust() )
+     expect_null(getGOPlots(NULL, NULL))
+     null_deseq <- runDE(NULL)
+     expect_null(null_deseq)
+     expect_null(plot_pca(NULL))
+ })
Test passed 😸
> 
> proc.time()
   user  system elapsed 
 15.746   1.039  16.771

debrowser.Rcheck/tests/test-ui.Rout


R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> require(shiny)
Loading required package: shiny
> library(debrowser)



##############################################################################
Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html. Particullary, users are required to
formally cite the original Pathview paper (not just mention it) in publications
or products. For details, do citation("pathview") within R.

The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG
license agreement (details at http://www.kegg.jp/kegg/legal.html).
##############################################################################
DEBrowser v1.27.1  For help: https://debrowser.readthedocs.org/

If you use DEBrowser in published research, please cite:

Alper Kucukural, Onur Yukselen, Deniz M. Ozata, Melissa J. Moore, Manuel Garber
DEBrowser: Interactive Differential Expression Analysis and Visualization Tool for Count Data
BMC Genomics 2019 20:6

doi:0.1186/s12864-018-5362-x

> library(testthat)
> 
> test_that("able to create panel UI", {
+     expect_silent( QCPanel <- getQCPanel() )
+     expect_true(exists("QCPanel"))
+     expect_equal(QCPanel[[1]][[1]], "div")
+ 
+     expect_silent( downloads <- getDownloadSection() )
+     expect_true(exists("downloads"))
+     expect_equal(downloads[[1]][[1]], "div")
+ 
+     expect_silent( getMain <- getMainPanel() )
+     expect_true(exists("getMain"))
+     expect_equal(getMain[[1]][[1]], "div")
+ 
+     expect_silent( getStart <- getStartupMsg() )
+     expect_true(exists("getStart"))
+     expect_equal(getStart[[1]][[1]], "div")
+ 
+     expect_silent( getAfter <- getAfterLoadMsg() )
+     expect_true(exists("getAfter"))
+     expect_equal(getAfter[[1]][[1]], "div")
+ 
+     expect_silent(getGO <- getGoPanel() )
+     expect_true(exists("getGO"))
+     expect_equal(getGO[[1]][[1]], "div")
+ })
Test passed 🥇
> 
> proc.time()
   user  system elapsed 
 16.288   0.908  17.180

Example timings

debrowser.Rcheck/debrowser-Ex.timings

nameusersystemelapsed
BoxMainPlotControlsUI0.0230.0080.035
IQRPlotControlsUI0.0020.0000.002
actionButtonDE0.0050.0000.005
addDataCols0.0010.0000.000
addID0.0010.0000.000
all2all0.1950.0000.195
all2allControlsUI0.0350.0000.035
applyFilters0.0010.0000.001
applyFiltersNew0.0010.0000.000
applyFiltersToMergedComparison000
barMainPlotControlsUI0.0020.0000.002
batchEffectUI0.0440.0040.050
batchMethod0.0020.0000.002
changeClusterOrder000
checkCountData0.0000.0000.001
checkMetaData0.0000.0000.001
clustFunParamsUI000
clusterData0.0010.0000.000
compareClust0.0010.0000.000
condSelectUI0.0060.0000.006
correctCombat0.0000.0000.001
correctHarman0.0000.0000.001
customColorsUI0.0070.0000.009
cutOffSelectionUI0.0040.0000.004
dataLCFUI0.0140.0000.014
dataLoadUI0.0130.0000.014
deServer0.040.000.04
deUI0.1120.0070.120
debrowserIQRplot000
debrowserall2all000
debrowserbarmainplot000
debrowserbatcheffect0.0000.0000.001
debrowserboxmainplot000
debrowsercondselect000
debrowserdataload0.0010.0000.001
debrowserdeanalysis000
debrowserdensityplot0.0000.0010.000
debrowserheatmap0.0000.0010.001
debrowserhistogram0.0000.0010.000
debrowserlowcountfilter0.0000.0000.001
debrowsermainplot000
debrowserpcaplot000
dendControlsUI0.0070.0000.007
densityPlotControlsUI0.0020.0000.001
distFunParamsUI000
drawKEGG000
drawPCAExplained000
fileTypes0.0000.0000.001
fileUploadBox0.0040.0000.004
generateTestData0.0000.0010.001
getAfterLoadMsg0.0000.0010.000
getAll2AllPlotUI000
getBSTableUI000
getBarMainPlot000
getBarMainPlotUI0.0000.0000.001
getBoxMainPlot0.0000.0000.001
getBoxMainPlotUI0.0000.0000.001
getColorShapeSelection0.0000.0000.001
getColors0.0010.0000.001
getCompSelection0.0020.0000.002
getCondMsg000
getConditionSelector000
getConditionSelectorFromMeta000
getCovariateDetails000
getCutOffSelection0.0030.0000.003
getDEAnalysisText0.0020.0000.002
getDEResultsUI0.0020.0000.002
getDataAssesmentText0.0020.0000.002
getDataForTables000
getDataPreparationText0.0010.0000.001
getDensityPlot000
getDensityPlotUI000
getDomains000
getDown0.0010.0000.001
getDownloadSection0.0090.0000.009
getEnrichDO000
getEnrichGO000
getEnrichKEGG0.0000.0000.001
getEntrezIds0.0010.0000.001
getEntrezTable0.0010.0000.001
getGOLeftMenu0.0120.0000.012
getGOPlots000
getGSEA000
getGeneList0.4510.0350.487
getGeneSetData0.0000.0000.001
getGoPanel0.0120.0000.012
getGroupSelector0.0010.0000.000
getHeatmapUI0.0010.0000.000
getHelpButton000
getHideLegendOnOff0.0020.0000.002
getHistogramUI0.0000.0000.001
getIQRPlot0.0010.0000.001
getIQRPlotUI000
getIntroText0.0020.0000.002
getJSLine0.0020.0000.002
getKEGGModal0.0030.0000.004
getLeftMenu0.0010.0000.001
getLegendColors0.0010.0000.001
getLegendRadio0.0030.0000.003
getLegendSelect0.0020.0000.002
getLevelOrder000
getLoadingMsg0.0010.0000.002
getLogo0.0010.0000.001
getMainPanel0.0010.0000.001
getMainPlotUI000
getMainPlotsLeftMenu0.2140.0200.234
getMean000
getMergedComparison000
getMetaSelector000
getMethodDetails0.0000.0000.001
getMostVariedList000
getNormalizedMatrix0.0180.0000.018
getOrganism0.0010.0000.001
getOrganismBox0.0030.0000.003
getOrganismPathway0.0010.0000.001
getPCAPlotUI0.0010.0000.000
getPCAcontolUpdatesJS000
getPCAexplained3.3580.1193.480
getPCselection0.0010.0000.000
getPlotArea000
getProgramTitle000
getQAText0.0020.0000.002
getQCLeftMenu0.0000.0000.001
getQCPanel0.0040.0000.005
getSampleDetails0.0010.0000.000
getSampleNames0.0010.0000.000
getSamples000
getSearchData0.0000.0000.001
getSelHeat0.0000.0000.001
getSelectInputBox000
getSelectedCols000
getSelectedDatasetInput000
getShapeColor000
getStartPlotsMsg0.0020.0000.003
getStartupMsg0.0030.0000.002
getTabUpdateJS0.0000.0000.001
getTableDetails0.0000.0000.001
getTableModal0.0040.0000.004
getTableStyle000
getUp000
getUpDown0.0010.0000.000
getVariationData0.0010.0000.000
get_conditions_given_selection0.0010.0000.000
heatmapControlsUI0.0430.0080.051
heatmapJScode0.0000.0000.001
heatmapServer0.0010.0000.001
heatmapUI0.0890.0040.093
hideObj0.0000.0000.001
histogramControlsUI0.0000.0010.001
installpack0.0000.0010.000
kmeansControlsUI0.0030.0040.008
lcfMetRadio0.0030.0000.002
loadpack0.0010.0230.026
mainPlotControlsUI0.0090.0000.009
mainScatterNew0.0010.0000.001
niceKmeans0.0010.0000.000
normalizationMethods0.0000.0020.002
palUI0.0020.0000.003
panel.cor0.0010.0000.001
panel.hist0.0010.0010.001
pcaPlotControlsUI0.0020.0030.006
plotData0.0000.0000.001
plotMarginsUI0.0070.0000.007
plotSizeMarginsUI0.0130.0000.012
plotSizeUI0.0040.0000.004
plotTypeUI0.0010.0000.000
plot_pca1.2150.0431.259
prepDEOutput0.0010.0010.000
prepDataContainer0.0010.0000.001
prepGroup0.0010.0000.000
prepHeatData000
prepPCADat000
push000
removeCols0.0010.0000.000
removeExtraCols0.0020.0000.001
round_vals000
runDE0.0010.0000.000
runDESeq20.0010.0000.000
runEdgeR0.0010.0000.000
runHeatmap0.0000.0000.001
runHeatmap20.0000.0000.001
runLimma0.0000.0000.001
run_pca1.0140.0111.026
selectConditions0.0010.0000.001
selectGroupInfo000
selectedInput0.0000.0000.001
sepRadio0.0020.0000.003
setBatch0.0000.0000.001
showObj000
startDEBrowser000
startHeatmap0.0010.0000.000
textareaInput0.0010.0000.000
togglePanels000