Panagiotis Moulos
| Snapshot Date: 2025-01-30 13:00 -0500 (Thu, 30 Jan 2025) |
| git_url: https://git.bioconductor.org/packages/metaseqR2 |
| git_branch: RELEASE_3_20 |
| git_last_commit: 69fd758 |
| git_last_commit_date: 2024-10-29 10:46:48 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-02-03 12:08 -0500 (Mon, 03 Feb 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4746 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4494 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4517 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4469 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4400 |
| 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 1215/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| metaseqR2 1.18.0 (landing page) Panagiotis Moulos
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the metaseqR2 package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/metaseqR2.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. |
| Package: metaseqR2 |
| Version: 1.18.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:metaseqR2.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings metaseqR2_1.18.0.tar.gz |
| StartedAt: 2025-01-31 06:14:27 -0500 (Fri, 31 Jan 2025) |
| EndedAt: 2025-01-31 06:31:17 -0500 (Fri, 31 Jan 2025) |
| EllapsedTime: 1010.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: metaseqR2.Rcheck |
| Warnings: 0 |
##############################################################################
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### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:metaseqR2.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings metaseqR2_1.18.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/metaseqR2.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘metaseqR2/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘metaseqR2’ version ‘1.18.0’
* 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 ‘metaseqR2’ can be installed ... OK
* used C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* 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 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
getUcscUtr: no visible binding for global variable ‘customDir’
Undefined global functions or variables:
customDir
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
statNoiseq 17.372 0.085 17.919
read2count 14.810 1.977 18.461
metaseqr2 8.786 0.821 12.313
buildCustomAnnotation 8.632 0.465 9.458
statDeseq2 7.705 0.129 8.490
makeSimDataTcc 5.131 0.048 5.228
getAnnotation 3.322 0.158 5.283
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘runTests.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/Users/biocbuild/bbs-3.20-bioc/meat/metaseqR2.Rcheck/00check.log’
for details.
metaseqR2.Rcheck/00install.out
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###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL metaseqR2
###
##############################################################################
##############################################################################
* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘metaseqR2’ ...
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c pval.c -o pval.o
pval.c:26:11: warning: unused variable 'esttotalperlength' [-Wunused-variable]
double esttotalperlength = total/2;
^
1 warning generated.
clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o metaseqR2.so pval.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-metaseqR2/00new/metaseqR2/libs
** R
** data
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (metaseqR2)
metaseqR2.Rcheck/tests/runTests.Rout
R version 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20
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.
> BiocGenerics:::testPackage("metaseqR2")
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, saveRDS, setdiff, table,
tapply, union, unique, unsplit, which.max, which.min
Attaching package: 'S4Vectors'
The following object is masked from 'package:utils':
findMatches
The following objects are masked from 'package:base':
I, expand.grid, unname
Attaching package: 'MatrixGenerics'
The following objects are masked from 'package:matrixStats':
colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
colWeightedMeans, colWeightedMedians, colWeightedSds,
colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
rowWeightedSds, rowWeightedVars
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: 'Biobase'
The following object is masked from 'package:MatrixGenerics':
rowMedians
The following objects are masked from 'package:matrixStats':
anyMissing, rowMedians
Attaching package: 'limma'
The following object is masked from 'package:DESeq2':
plotMA
The following object is masked from 'package:BiocGenerics':
plotMA
locfit 1.5-9.10 2024-06-24
Attaching package: 'metaseqR2'
The following object is masked from 'package:limma':
readTargets
Downsampling counts...
Estimating initial dispersion population...
Estimating dispersions using log-likelihood...
Running simulations... This procedure requires time... Please wait...Using Ensembl host https://jan2024.archive.ensembl.org
2025-01-31 06:30:40: Data processing started...
Read counts file: imported custom data frame
Conditions: G1, G2
Samples to include: G1_rep1, G1_rep2, G1_rep3, G2_rep1, G2_rep2, G2_rep3
Samples to exclude: none
Requested contrasts: G1_vs_G2
Annotation: embedded
Organism: mm10
Reference source: ensembl
Count type: gene
Analysis preset: all_basic
Transcriptional level: gene
Exon filters: none applied
Gene filters: none applied
Filter application: postnorm
Normalization algorithm: edaseq
Normalization arguments:
within.which: loess
between.which: full
Statistical algorithm(s): edger, limma
Statistical arguments:
edger: classic, 5, 10, movingave, NULL, grid, 11, c(-6, 6), NULL, CoxReid, 10000, NULL, auto, NULL, NULL, NULL, NULL, 0.125, NULL, auto, chisq, TRUE, FALSE, c(0.05, 0.1)
limma: none
Meta-analysis method: simes
Multiple testing correction: BH
Logarithmic transformation offset: 1
Analysis preset: all_basic
Quality control plots:
Figure format: png
Output directory: /tmp/Rtmpww4iUE
Output data: annotation, p_value, adj_p_value, meta_p_value, adj_meta_p_value, fold_change
Output scale(s): natural, log2
Output values: normalized
Loading gene annotation...
Saving gene model to /tmp/Rtmpww4iUE/data/gene_model.RData
Removing genes with zero counts in all samples...
Normalizing with: edaseq
Running statistical tests with: edger
Contrast: G1_vs_G2
Running statistical tests with: limma
Contrast: G1_vs_G2
Performing meta-analysis with simes
Building output files...
Contrast: G1_vs_G2
Adding non-filtered data...
binding annotation...
binding p-values...
binding FDRs...
binding meta p-values...
binding adjusted meta p-values...
binding natural normalized fold changes...
binding log2 normalized fold changes...
Writing output...
2025-01-31 06:30:41: Data processing finished!
Total processing time: 01 seconds
Estimating AUFC weights... Please wait...
Processing edger
Processing limma
Retrieving edger
Retrieving limma
2025-01-31 06:30:43: Data processing started...
Read counts file: imported custom data frame
Conditions: e14.5, adult_8_weeks
Samples to include: e14.5_1, e14.5_2, a8w_1, a8w_2
Samples to exclude: none
Requested contrasts: adult_8_weeks_vs_e14.5
Library sizes:
e14.5_1: 3102907
e14.5_2: 2067905
a8w_1: 3742059
a8w_2: 4403954
Annotation: embedded
Organism: mm9
Reference source: ensembl
Count type: gene
Analysis preset: medium_basic
Transcriptional level: gene
Exon filters: minActiveExons
minActiveExons:
exonsPerGene: 5
minExons: 2
frac: 0.2
Gene filters: length, avgReads, expression, biotype
length:
length: 500
avgReads:
averagePerBp: 100
quantile: 0.25
expression:
median: TRUE
mean: FALSE
quantile: NA
known: NA
custom: NA
biotype:
pseudogene: FALSE
snRNA: FALSE
protein_coding: FALSE
antisense: FALSE
miRNA: FALSE
lincRNA: FALSE
snoRNA: FALSE
processed_transcript: FALSE
misc_RNA: FALSE
rRNA: TRUE
sense_overlapping: FALSE
sense_intronic: FALSE
polymorphic_pseudogene: FALSE
non_coding: FALSE
three_prime_overlapping_ncrna: FALSE
IG_C_gene: FALSE
IG_J_gene: FALSE
IG_D_gene: FALSE
IG_V_gene: FALSE
ncrna_host: FALSE
Filter application: postnorm
Normalization algorithm: edger
Normalization arguments:
method: TMM
logratioTrim: 0.3
sumTrim: 0.05
doWeighting: TRUE
Acutoff: -1e+10
p: 0.75
Statistical algorithm(s): edger, limma
Statistical arguments:
edger: classic, 5, 10, movingave, NULL, grid, 11, c(-6, 6), NULL, CoxReid, 10000, NULL, auto, NULL, NULL, NULL, NULL, 0.125, NULL, auto, chisq, TRUE, FALSE, c(0.05, 0.1)
limma: none
Meta-analysis method: simes
Multiple testing correction: BH
p-value threshold: 0.05
Logarithmic transformation offset: 1
Analysis preset: medium_basic
Quality control plots: mds
Figure format: png
Output directory: /tmp/Rtmpww4iUE
Output data: annotation, p_value, adj_p_value, meta_p_value, adj_meta_p_value, fold_change
Output scale(s): natural, log2
Output values: normalized
Loading gene annotation...
Saving gene model to /tmp/Rtmpww4iUE/data/gene_model.RData
Removing genes with zero counts in all samples...
Normalizing with: edger
Applying gene filter length...
Threshold below which ignored: 500
Applying gene filter avgReads...
Threshold below which ignored: 0.0659629215631332
Applying gene filter expression...
Threshold below which ignored: 68
Applying gene filter biotype...
Biotypes ignored: rRNA
2106 genes filtered out
1681 genes remain after filtering
Running statistical tests with: edger
Contrast: adult_8_weeks_vs_e14.5
Contrast adult_8_weeks_vs_e14.5: found 906 genes
Running statistical tests with: limma
Contrast: adult_8_weeks_vs_e14.5
Contrast adult_8_weeks_vs_e14.5: found 911 genes
Performing meta-analysis with simes
Building output files...
Contrast: adult_8_weeks_vs_e14.5
Adding non-filtered data...
binding annotation...
binding p-values...
binding FDRs...
binding meta p-values...
binding adjusted meta p-values...
binding natural normalized fold changes...
binding log2 normalized fold changes...
Writing output...
Adding filtered data...
binding annotation...
binding p-values...
binding FDRs...
binding meta p-values...
binding adjusted meta p-values...
binding natural normalized fold changes...
binding log2 normalized fold changes...
Writing output...
Adding report data...
binding annotation...
binding meta p-values...
binding adjusted meta p-values...
binding log2 normalized fold changes...
binding normalized mean counts...
binding normalized mean counts...
Creating quality control graphs...
Plotting in png format...
Plotting mds...
Importing mds...
Writing plot database in /tmp/Rtmpww4iUE/data/reportdb.js
Creating HTML report...
Compressing figures... adding: tmp/Rtmpww4iUE/plots/qc/mds.png (deflated 48%)
Downloading required JavaScript libraries...trying URL 'https://raw.github.com/HubSpot/pace/v1.0.0/pace.min.js'
Content type 'text/plain; charset=utf-8' length 12363 bytes (12 KB)
==================================================
downloaded 12 KB
trying URL 'https://code.highcharts.com/highcharts.js'
downloaded 268 KB
trying URL 'https://code.highcharts.com/highcharts-more.js'
downloaded 92 KB
trying URL 'https://code.highcharts.com/modules/exporting.js'
downloaded 19 KB
trying URL 'https://code.highcharts.com/modules/offline-exporting.js'
downloaded 26 KB
trying URL 'https://code.highcharts.com/modules/export-data.js'
downloaded 12 KB
trying URL 'http://jvenn.toulouse.inrae.fr/app/js/canvas2svg.js'
Content type 'application/javascript' length 35122 bytes (34 KB)
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downloaded 34 KB
trying URL 'http://jvenn.toulouse.inrae.fr/app/js/jvenn.min.js'
Content type 'application/javascript' length 100524 bytes (98 KB)
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downloaded 98 KB
trying URL 'https://unpkg.com/dexie@2.0.4/dist/dexie.min.js'
downloaded 55 KB
processing file: metaseqr2_report.Rmd
output file: metaseqr2_report.knit.md
/usr/local/bin/pandoc +RTS -K512m -RTS metaseqr2_report.knit.md --to html4 --from markdown+autolink_bare_uris+tex_math_single_backslash --output /private/tmp/Rtmpww4iUE/index.html --lua-filter /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/rmarkdown/rmarkdown/lua/pagebreak.lua --lua-filter /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/rmarkdown/rmarkdown/lua/latex-div.lua +RTS -K2048m -RTS --variable 'material:true' --variable 'lightbox:true' --variable 'thumbnails:true' --variable 'gallery:true' --variable 'cards:true' --variable bs3=TRUE --standalone --section-divs --table-of-contents --toc-depth 1 --template /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/rmdformats/templates/material/material.html --highlight-style kate --variable theme=bootstrap --include-in-header /tmp/Rtmpww4iUE/rmarkdown-str8ef01aaf9166.html
Output created: /private/tmp/Rtmpww4iUE/index.html
2025-01-31 06:30:56: Data processing finished!
Total processing time: 13 seconds
RUNIT TEST PROTOCOL -- Fri Jan 31 06:30:57 2025
***********************************************
Number of test functions: 2
Number of errors: 0
Number of failures: 0
1 Test Suite :
metaseqR2 RUnit Tests - 2 test functions, 0 errors, 0 failures
Number of test functions: 2
Number of errors: 0
Number of failures: 0
There were 50 or more warnings (use warnings() to see the first 50)
>
> proc.time()
user system elapsed
56.146 3.701 66.281
metaseqR2.Rcheck/metaseqR2-Ex.timings
| name | user | system | elapsed | |
| buildAnnotationDatabase | 0.001 | 0.003 | 0.004 | |
| buildCustomAnnotation | 8.632 | 0.465 | 9.458 | |
| combineBonferroni | 0.001 | 0.001 | 0.001 | |
| combineHarmonic | 0.002 | 0.002 | 0.006 | |
| combineMaxp | 0.001 | 0.001 | 0.002 | |
| combineMinp | 0.000 | 0.000 | 0.002 | |
| combineSimes | 0.001 | 0.000 | 0.003 | |
| combineWeight | 0.001 | 0.001 | 0.001 | |
| createSignalTracks | 1.958 | 0.188 | 2.512 | |
| diagplotAvgFtd | 0.136 | 0.014 | 0.175 | |
| diagplotBoxplot | 1.581 | 0.066 | 1.828 | |
| diagplotCor | 0.345 | 0.051 | 0.436 | |
| diagplotDeHeatmap | 1.888 | 0.063 | 2.076 | |
| diagplotEdaseq | 0.773 | 0.106 | 0.893 | |
| diagplotFiltered | 0.044 | 0.020 | 0.063 | |
| diagplotFtd | 0.044 | 0.019 | 0.064 | |
| diagplotMds | 0.653 | 0.022 | 0.677 | |
| diagplotNoiseq | 1.175 | 0.095 | 1.276 | |
| diagplotPairs | 1.009 | 0.128 | 1.141 | |
| diagplotRoc | 0.047 | 0.019 | 0.067 | |
| diagplotVenn | 0.348 | 0.031 | 0.382 | |
| diagplotVolcano | 2.755 | 0.092 | 2.856 | |
| downsampleCounts | 0.626 | 0.004 | 0.636 | |
| estimateAufcWeights | 3.845 | 0.224 | 4.116 | |
| estimateSimParams | 2.476 | 0.047 | 2.545 | |
| getAnnotation | 3.322 | 0.158 | 5.283 | |
| getDefaults | 0.001 | 0.000 | 0.000 | |
| getInstalledAnnotations | 0.002 | 0.000 | 0.003 | |
| getWeights | 0.000 | 0.001 | 0.001 | |
| importCustomAnnotation | 2.047 | 0.022 | 2.078 | |
| loadAnnotation | 0.002 | 0.000 | 0.003 | |
| makeSimDataSd | 2.521 | 0.036 | 2.727 | |
| makeSimDataTcc | 5.131 | 0.048 | 5.228 | |
| metaTest | 0.015 | 0.010 | 0.026 | |
| metaseqr2 | 8.786 | 0.821 | 12.313 | |
| metaseqrPlot | 1.394 | 0.056 | 1.454 | |
| normalizeAbsseq | 1.474 | 0.105 | 1.587 | |
| normalizeDeseq | 0.387 | 0.037 | 0.437 | |
| normalizeDeseq2 | 1.335 | 0.038 | 1.394 | |
| normalizeDss | 0.617 | 0.043 | 0.665 | |
| normalizeEdaseq | 0.659 | 0.036 | 0.699 | |
| normalizeEdger | 0.299 | 0.037 | 0.339 | |
| normalizeNbpseq | 0.286 | 0.037 | 0.325 | |
| normalizeNoiseq | 0.374 | 0.036 | 0.416 | |
| read2count | 14.810 | 1.977 | 18.461 | |
| readTargets | 0.045 | 0.009 | 0.055 | |
| statAbsseq | 3.484 | 0.142 | 3.715 | |
| statDeseq | 1.746 | 0.053 | 1.821 | |
| statDeseq2 | 7.705 | 0.129 | 8.490 | |
| statDss | 1.701 | 0.016 | 1.722 | |
| statEdger | 1.001 | 0.020 | 1.028 | |
| statLimma | 0.865 | 0.014 | 0.899 | |
| statNbpseq | 1.924 | 0.049 | 1.987 | |
| statNoiseq | 17.372 | 0.085 | 17.919 | |