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 220 downloads 26 exports 49 dependencies

Last updated 3 months agofrom:fe1b611453. Checks:1 OK, 6 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKJan 21 2025
R-4.5-winNOTEJan 21 2025
R-4.5-linuxNOTEJan 21 2025
R-4.4-winNOTEJan 21 2025
R-4.4-macNOTEJan 21 2025
R-4.3-winNOTEJan 21 2025
R-4.3-macNOTEJan 21 2025

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 Jan 21 2025.

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