ffpe

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see ffpe.

Quality assessment and control for FFPE microarray expression data

Bioconductor version: 3.9

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>

Citation (from within R, enter citation("ffpe")):

Installation

To install this package, start R (version "3.6") and enter:


if (!require("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")

ffpe package user guide	PDF	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GeneExpression, Microarray, QualityControl, Software
Version	1.28.0
In Bioconductor since	BioC 2.10 (R-2.15) (12 years)
License	GPL (>2)
Depends	R (>= 2.10.0), TTR, methods
Imports	Biobase, BiocGenerics, affy, lumi, methylumi, sfsmisc
System Requirements
URL

Suggests	genefilter, ffpeExampleData
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	ffpe_1.28.0.tar.gz
Windows Binary	ffpe_1.28.0.zip
Mac OS X 10.11 (El Capitan)	ffpe_1.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ffpe
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ffpe
Bioc Package Browser	https://code.bioconductor.org/browse/ffpe/
Package Short Url	https://bioconductor.org/packages/ffpe/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.9	Source Archive