Package: NanoTube 1.13.0

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_1.13.0.tar.gz
NanoTube_1.13.0.zip(r-4.5)NanoTube_1.13.0.zip(r-4.4)NanoTube_1.13.0.zip(r-4.3)
NanoTube_1.13.0.tgz(r-4.4-any)NanoTube_1.13.0.tgz(r-4.3-any)
NanoTube_1.13.0.tar.gz(r-4.5-noble)NanoTube_1.13.0.tar.gz(r-4.4-noble)
NanoTube_1.13.0.tgz(r-4.4-emscripten)NanoTube_1.13.0.tgz(r-4.3-emscripten)
NanoTube.pdf |NanoTube.html✨
NanoTube/json (API)
NEWS

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

Peer review:

Datasets:

On BioConductor:NanoTube-1.13.0(bioc 3.21)NanoTube-1.12.0(bioc 3.20)

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

softwaregeneexpressiondifferentialexpressionqualitycontrol

4.00 score 7 scripts 176 downloads 26 exports 49 dependencies

Last updated 2 months agofrom:fe1b611453. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 22 2024
R-4.5-winNOTEDec 22 2024
R-4.5-linuxNOTEDec 22 2024
R-4.4-winNOTEDec 22 2024
R-4.4-macNOTEDec 22 2024
R-4.3-winNOTEDec 22 2024
R-4.3-macNOTEDec 22 2024

Exports:deVolcanofgseaPostprocessingfgseaPostprocessingXLSXfgseaToLEdgegm_meangroupedGSEAtoStackedReportgroupFGSEAlimmaToFGSEAmakeDiffExprFilemakeNanoStringSetFromEsetnanostringPCAnegativeQCnormalize_housekeepingnormalize_pos_controlsnsdiffToFGSEApositiveQCprocessNanostringDataread_cpdb_sourceDBsread_cpdb_tabread_merge_rccread_rccread_sampleDataremove_backgroundrunLimmaAnalysisuntar_dirsunzip_dirs

Dependencies:BHBiobaseBiocGenericsBiocParallelclicodetoolscolorspacecowplotcpp11data.tablefansifarverfastmatchfgseaformatRfutile.loggerfutile.optionsgenericsggplot2gluegtableisobandlabelinglambda.rlatticelifecyclelimmamagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigplyrR6RColorBrewerRcppreshaperlangscalessnowstatmodtibbleutf8vctrsviridisLitewithr

Analyzing NanoString nCounter Data with the NanoTube

Caleb A Class

Rendered fromNanoTube.Rmdusingknitr::rmarkdownon Dec 22 2024.

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