ffpe

DOI: 10.18129/B9.bioc.ffpe    

This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see ffpe.

Quality assessment and control for FFPE microarray expression data

Bioconductor version: 3.12

Identify low-quality data using metrics developed for expression data derived from Formalin-Fixed, Paraffin-Embedded (FFPE) data. Also a function for making Concordance at the Top plots (CAT-plots).

Author: Levi Waldron

Maintainer: Levi Waldron <lwaldron.research at gmail.com>

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("ffpe")

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("ffpe")

 

PDF	R Script	ffpe package user guide
PDF		Reference Manual

Details

biocViews	GeneExpression, Microarray, QualityControl, Software
Version	1.34.0
In Bioconductor since	BioC 2.10 (R-2.15) (9 years)
License	GPL (>2)
Depends	R (>= 2.10.0), TTR, methods
Imports	Biobase, BiocGenerics, affy, lumi, methylumi, sfsmisc
LinkingTo
Suggests	genefilter, ffpeExampleData
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	ffpe_1.34.0.tar.gz
Windows Binary	ffpe_1.34.0.zip
macOS 10.13 (High Sierra)	ffpe_1.34.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ffpe
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ffpe
Package Short Url	https://bioconductor.org/packages/ffpe/
Package Downloads Report	Download Stats