Package: NanoTube 1.19.0

Caleb Class

NanoTube: An Easy Pipeline for NanoString nCounter Data Analysis

NanoTube includes functions for the processing, quality control, analysis, and visualization of NanoString nCounter data. Analysis functions include differential analysis and gene set analysis methods, as well as postprocessing steps to help understand the results. Additional functions are included to enable interoperability with other Bioconductor NanoString data analysis packages.

Authors:Caleb Class [cre, aut], Caiden Lukan [ctb]

NanoTube_1.19.0.tar.gz
NanoTube_1.19.0.zip(r-4.7)NanoTube_1.19.0.zip(r-4.6)NanoTube_1.19.0.zip(r-4.5)
NanoTube_1.19.0.tgz(r-4.6-any)NanoTube_1.19.0.tgz(r-4.5-any)
NanoTube_1.19.0.tar.gz(r-4.7-any)NanoTube_1.19.0.tar.gz(r-4.6-any)
NanoTube_1.19.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
NanoTube/json (API)
NEWS

# Install 'NanoTube' in R:
install.packages('NanoTube', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:

On BioConductor:NanoTube-1.19.0(bioc 3.24)NanoTube-1.18.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

softwaregeneexpressiondifferentialexpressionqualitycontrol

4.00 score 8 scripts 366 downloads 26 exports 39 dependencies

Last updated from:cf02f2e565. Checks:8 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE336
linux-devel-x86_64NOTE288
source / vignettesOK290
linux-release-x86_64NOTE354
macos-release-arm64NOTE178
macos-oldrel-arm64NOTE157
windows-develNOTE257
windows-releaseNOTE230
windows-oldrelNOTE226
wasm-releaseOK182

Exports:deVolcanofgseaPostprocessingfgseaPostprocessingXLSXfgseaToLEdgegm_meangroupedGSEAtoStackedReportgroupFGSEAlimmaToFGSEAmakeDiffExprFilemakeNanoStringSetFromEsetnanostringPCAnegativeQCnormalize_housekeepingnormalize_pos_controlsnsdiffToFGSEApositiveQCprocessNanostringDataread_cpdb_sourceDBsread_cpdb_tabread_merge_rccread_rccread_sampleDataremove_backgroundrunLimmaAnalysisuntar_dirsunzip_dirs

Dependencies:BHBiobaseBiocGenericsBiocParallelclicodetoolscowplotcpp11data.tablefarverfastmatchfgseaformatRfutile.loggerfutile.optionsgenericsggplot2gluegtableisobandlabelinglambda.rlatticelifecyclelimmaMatrixplyrR6RColorBrewerRcppreshaperlangS7scalessnowstatmodvctrsviridisLitewithr

Analyzing NanoString nCounter Data with the NanoTube

Caleb A Class

Rendered fromNanoTube.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2023-03-08
Started: 2020-09-29