NanoTube

DOI: 10.18129/B9.bioc.NanoTube    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see NanoTube.

An Easy Pipeline for NanoString nCounter Data Analysis

Bioconductor version: 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>

Installation

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

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

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	1.0.0
In Bioconductor since	BioC 3.14 (R-4.1) (< 6 months)
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_1.0.0.tar.gz
Windows Binary	NanoTube_1.0.0.zip
macOS 10.13 (High Sierra)	NanoTube_1.0.0.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