nanostringnctools's Introduction

NanoStringNCTools

Overview

The NanoStringNCTools package contains tools for analyzing data from NanoString nCounter Technology. It provides functions to read, quality control (QC) and normalize starting from Nanostring RCC and RLF files generated from the NanoString nCounter.

It contains the definition of the NanoStringRCCSet which inherits from Biobase’s ExpressionSet class and complimentary functions that will help in starting analysis.

Installation

Download the release version from Bioconductor

https://bioconductor.org/packages/release/bioc/html/NanoStringNCTools.html

Install the release version from Bioconductor

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

BiocManager::install(version="release")

BiocManager::install("NanoStringNCTools")

Install the development version from GitHub

devtools::install_github("Nanostring-Biostats/NanoStringNCTools", 
                         build_vignettes = TRUE, ref = "dev")

Documentation

To learn how to start using NanoStringNCTools, view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("NanoStringNCTools")

Branches

The release version on Bioconductor is the stable version. https://bioconductor.org/packages/release/bioc/html/NanoStringNCTools.html

The devel version on Bioconductor is upstream of master on GitHub. It is under active development and no guarantee is made on usability at any given time.

The dev branch on GitHub is under active development and no guarantee is made on usability at any given time.

Citation

Aboyoun, P.; Ortogero, N.; Yang, Z.; Reeves, J.; Gorman, K.; Vitancol, R.; Smith, T.; Ren, Y.; Henderson, D. NanoStringNCTools: NanoString nCounter Tools. R Package Version 1.0.0. NanoString Technologies Inc.; Seattle, WA 98109, USA. 2021.

License

This project is licensed under the MIT license.

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