NanoTube

DOI: 10.18129/B9.bioc.NanoTube    

This is the development version of NanoTube; to use it, please install the devel version of Bioconductor.

An Easy Pipeline for NanoString nCounter Data Analysis

Bioconductor version: Development (3.14)

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.

Author: Caleb Class [cre, aut]

Maintainer: Caleb Class <cclass at butler.edu>

Citation (from within R, enter citation("NanoTube")):

Installation

To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("NanoTube")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("NanoTube")

 

HTML R Script NanoTube Vignette
PDF   Reference Manual
Text   NEWS

Details

biocViews DifferentialExpression, GeneExpression, QualityControl, Software
Version 0.99.1
In Bioconductor since BioC 3.14 (R-4.1)
License GPL-3
Depends R (>= 4.1), Biobase, ggplot2
Imports fgsea, limma, methods, reshape, stats, utils
LinkingTo
Suggests grid, kableExtra, knitr, NanoStringDiff, pheatmap, plotly, rlang, rmarkdown, ruv, qusage, shiny, testthat, xlsx
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package NanoTube_0.99.1.tar.gz
Windows Binary NanoTube_0.99.1.zip
macOS 10.13 (High Sierra) NanoTube_0.99.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/NanoTube
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/NanoTube
Package Short Url https://bioconductor.org/packages/NanoTube/
Package Downloads Report Download Stats

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