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This page was generated on 2025-11-01 11:32 -0400 (Sat, 01 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4774
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

Package 523/2321HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
debrowser 1.39.0  (landing page)
Alper Kucukural
Snapshot Date: 2025-10-31 13:40 -0400 (Fri, 31 Oct 2025)
git_url: https://git.bioconductor.org/packages/debrowser
git_branch: devel
git_last_commit: 17795bc
git_last_commit_date: 2025-10-29 10:30:54 -0400 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  NO, package depends on 'Harman' which is not available

CHECK results for debrowser on nebbiolo1

To the developers/maintainers of the debrowser package:
- 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 Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: debrowser
Version: 1.39.0
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:debrowser.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings debrowser_1.39.0.tar.gz
StartedAt: 2025-10-31 22:34:56 -0400 (Fri, 31 Oct 2025)
EndedAt: 2025-10-31 22:42:08 -0400 (Fri, 31 Oct 2025)
EllapsedTime: 432.4 seconds
RetCode: 0
Status:   OK  
CheckDir: debrowser.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:debrowser.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings debrowser_1.39.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.23-bioc/meat/debrowser.Rcheck’
* using R Under development (unstable) (2025-10-20 r88955)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘debrowser/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘debrowser’ version ‘1.39.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Imports includes 35 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
* 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 code 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 loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... 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’
generateTestData: no visible binding for global variable ‘metadata’
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 metadata 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 ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.23-bioc/meat/debrowser.Rcheck/00check.log’
for details.

Installation output

debrowser.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL debrowser
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’
* installing *source* package ‘debrowser’ ...
** this is package ‘debrowser’ version ‘1.39.0’
** 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) (2025-10-20 r88955) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 v1.39.0  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 
 14.380   0.868  15.241

debrowser.Rcheck/tests/test-deseq.Rout


R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 v1.39.0  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 
 30.532   1.049  31.572

debrowser.Rcheck/tests/test-null.Rout


R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 v1.39.0  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 
 14.218   0.866  15.083

debrowser.Rcheck/tests/test-ui.Rout


R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 v1.39.0  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 
 14.110   0.877  14.977

Example timings

debrowser.Rcheck/debrowser-Ex.timings

nameusersystemelapsed
BoxMainPlotControlsUI0.0220.0010.022
IQRPlotControlsUI0.0020.0010.002
actionButtonDE0.0040.0000.003
addDataCols0.0000.0000.001
addID000
all2all0.1310.0050.136
all2allControlsUI0.0290.0010.031
applyFilters0.0010.0000.000
applyFiltersNew000
applyFiltersToMergedComparison0.0010.0000.000
barMainPlotControlsUI0.0020.0000.002
batchEffectUI0.0350.0030.039
batchMethod0.0010.0000.002
changeClusterOrder0.0000.0000.001
checkCountData000
checkMetaData0.0010.0000.000
clustFunParamsUI000
clusterData0.0000.0000.001
compareClust000
condSelectUI0.0040.0000.004
correctCombat0.0010.0000.000
correctHarman000
customColorsUI0.0030.0000.005
cutOffSelectionUI0.0040.0010.004
dataLCFUI0.0110.0000.011
dataLoadUI0.0110.0000.010
deServer0.0050.0030.007
deUI0.0840.0060.092
debrowserIQRplot0.0010.0010.000
debrowserall2all000
debrowserbarmainplot0.0000.0000.001
debrowserbatcheffect0.0000.0000.001
debrowserboxmainplot000
debrowsercondselect000
debrowserdataload0.0010.0000.001
debrowserdeanalysis000
debrowserdensityplot0.0010.0000.000
debrowserheatmap0.0010.0000.000
debrowserhistogram000
debrowserlowcountfilter0.0000.0000.001
debrowsermainplot0.0000.0000.001
debrowserpcaplot0.0000.0000.001
dendControlsUI0.0050.0010.006
densityPlotControlsUI0.0020.0000.001
distFunParamsUI000
drawKEGG0.0000.0000.001
drawPCAExplained0.0000.0000.001
fileTypes000
fileUploadBox0.0010.0010.002
generateTestData0.0000.0010.000
getAfterLoadMsg000
getAll2AllPlotUI000
getBSTableUI0.0010.0000.000
getBarMainPlot0.0010.0000.000
getBarMainPlotUI0.0000.0000.001
getBoxMainPlot0.0000.0000.001
getBoxMainPlotUI0.0000.0000.001
getColorShapeSelection000
getColors0.0010.0010.000
getCompSelection0.0020.0000.001
getCondMsg000
getConditionSelector0.0000.0010.000
getConditionSelectorFromMeta000
getCovariateDetails0.0000.0000.001
getCutOffSelection0.0020.0000.002
getDEAnalysisText0.0000.0000.001
getDEResultsUI0.0000.0010.001
getDataAssesmentText0.0010.0000.001
getDataForTables0.0000.0010.000
getDataPreparationText0.0010.0000.001
getDensityPlot000
getDensityPlotUI000
getDomains000
getDown0.0000.0000.001
getDownloadSection0.0430.0020.045
getEnrichDO0.0010.0010.000
getEnrichGO0.0010.0000.000
getEnrichKEGG000
getEntrezIds0.0000.0000.001
getEntrezTable0.0000.0000.001
getGOLeftMenu0.0070.0020.009
getGOPlots0.0010.0000.000
getGSEA0.0010.0000.000
getGeneList0.6310.0680.699
getGeneSetData000
getGoPanel0.0100.0010.011
getGroupSelector0.0010.0000.001
getHeatmapUI0.0010.0000.001
getHelpButton000
getHideLegendOnOff0.0020.0000.002
getHistogramUI000
getIQRPlot000
getIQRPlotUI0.0000.0010.000
getIntroText0.0010.0000.002
getJSLine0.0010.0010.002
getKEGGModal0.0020.0000.002
getLeftMenu0.0010.0000.001
getLegendColors000
getLegendRadio0.0020.0000.002
getLegendSelect0.0010.0000.002
getLevelOrder0.0000.0000.001
getLoadingMsg0.0010.0000.002
getLogo0.0010.0010.002
getMainPanel0.0000.0010.001
getMainPlotUI0.0000.0000.001
getMainPlotsLeftMenu0.0590.0000.060
getMean0.0010.0000.001
getMergedComparison0.0010.0000.001
getMetaSelector000
getMethodDetails0.0010.0000.001
getMostVariedList000
getNormalizedMatrix0.0130.0010.014
getOrganism0.0000.0000.001
getOrganismBox0.0030.0000.003
getOrganismPathway000
getPCAPlotUI000
getPCAcontolUpdatesJS000
getPCAexplained1.9350.0802.016
getPCselection0.0010.0000.000
getPlotArea000
getProgramTitle0.0010.0010.000
getQAText0.0010.0000.001
getQCLeftMenu0.0010.0000.000
getQCPanel0.0030.0000.002
getSampleDetails000
getSampleNames0.0000.0010.000
getSearchData000
getSelHeat000
getSelectInputBox0.0010.0000.000
getSelectedCols000
getSelectedDatasetInput0.0000.0000.001
getShapeColor000
getStartPlotsMsg0.0020.0010.002
getStartupMsg0.0010.0010.002
getTabUpdateJS0.0000.0000.001
getTableDetails0.0000.0000.001
getTableModal0.0020.0000.003
getTableStyle0.0000.0000.001
getUp000
getUpDown000
getVariationData0.0000.0000.001
get_conditions_given_selection000
heatmapControlsUI0.030.000.03
heatmapJScode000
heatmapServer0.0000.0010.001
heatmapUI0.0520.0010.054
hideObj0.0000.0000.001
histogramControlsUI0.0000.0000.001
installpack000
kmeansControlsUI0.0040.0010.005
lcfMetRadio0.0010.0010.002
loadpack0.0000.0020.002
mainPlotControlsUI0.0040.0000.004
mainScatterNew000
niceKmeans0.0000.0010.001
normalizationMethods0.0010.0000.002
palUI0.0020.0010.002
panel.cor0.0010.0000.000
panel.hist0.0010.0000.001
pcaPlotControlsUI0.0040.0010.004
plotData000
plotMarginsUI0.0040.0010.004
plotSizeMarginsUI0.0070.0000.007
plotSizeUI0.0020.0000.003
plotTypeUI0.0000.0000.001
plot_pca0.9490.0501.000
prepDataContainer0.0000.0000.001
prepGroup000
prepHeatData0.0000.0000.001
prepPCADat000
push000
removeCols000
removeExtraCols0.0010.0000.002
round_vals0.0000.0000.001
runDE0.0010.0000.000
runDESeq20.0010.0000.000
runEdgeR0.0010.0000.000
runHeatmap000
runHeatmap2000
runLimma0.0010.0010.000
run_pca0.6030.0020.606
selectConditions0.0000.0000.001
selectGroupInfo0.0010.0010.001
selectedInput000
sepRadio0.0010.0000.002
setBatch000
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startDEBrowser0.0010.0000.001
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