NanoTube
An Easy Pipeline for NanoString nCounter Data Analysis
Bioconductor version: Release (3.20)
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] 
, Caiden Lukan [ctb]
Maintainer: Caleb Class <cclass at butler.edu>
citation("NanoTube")):
Installation
To install this package, start R (version "4.4") 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")| NanoTube Vignette | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DifferentialExpression, GeneExpression, QualityControl, Software |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.14 (R-4.1) (3 years) |
| License | GPL-3 + file LICENSE |
| Depends | R (>= 4.1), Biobase, ggplot2, limma |
| Imports | fgsea, methods, reshape, stats, utils |
| System Requirements | |
| URL |
See More
| Suggests | grid, kableExtra, knitr, NanoStringDiff, pheatmap, plotly, rlang, rmarkdown, ruv, RUVSeq, shiny, testthat, xlsx |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | NanoTube_1.12.0.tar.gz |
| Windows Binary (x86_64) | NanoTube_1.12.0.zip (64-bit only) |
| macOS Binary (x86_64) | NanoTube_1.12.0.tgz |
| macOS Binary (arm64) | NanoTube_1.11.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/NanoTube |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/NanoTube |
| Bioc Package Browser | https://code.bioconductor.org/browse/NanoTube/ |
| Package Short Url | https://bioconductor.org/packages/NanoTube/ |
| Package Downloads Report | Download Stats |