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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("NanoStringQCPro")
In most cases, you don't need to download the package archive at all.
NanoStringQCPro
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see NanoStringQCPro.
Quality metrics and data processing methods for NanoString mRNA gene expression data
Bioconductor version: 3.4
NanoStringQCPro provides a set of quality metrics that can be used to assess the quality of NanoString mRNA gene expression data -- i.e. to identify outlier probes and outlier samples. It also provides different background subtraction and normalization approaches for this data. It outputs suggestions for flagging samples/probes and an easily sharable html quality control output.
Author: Dorothee Nickles <nickles.dorothee at gene.com>, Thomas Sandmann <sandmann.thomas at gene.com>, Robert Ziman <ziman.robert at gene.com>, Richard Bourgon <bourgon.richard at gene.com>
Maintainer: Robert Ziman <ziman.robert at gene.com>
Citation (from within R,
enter citation("NanoStringQCPro")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("NanoStringQCPro")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("NanoStringQCPro")
| R Script | NanoStringQCPro overview | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Microarray, Normalization, Preprocessing, QualityControl, ReportWriting, Software, mRNAMicroarray |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (2 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.2), methods |
| Imports | AnnotationDbi(>= 1.26.0), org.Hs.eg.db(>= 2.14.0), Biobase(>= 2.24.0), knitr (>= 1.12), NMF (>= 0.20.5), RColorBrewer (>= 1.0-5), png (>= 0.1-7) |
| LinkingTo | |
| Suggests | roxygen2 (>= 4.0.1), testthat, BiocStyle |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | NanoStringQCPro_1.6.0.tar.gz |
| Windows Binary | NanoStringQCPro_1.6.0.zip |
| Mac OS X 10.9 (Mavericks) | NanoStringQCPro_1.6.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/NanoStringQCPro/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/NanoStringQCPro/ |
| Package Downloads Report | Download Stats |
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