ffpe

This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see ffpe.

Quality assessment and control for FFPE microarray expression data

Bioconductor version: 3.20

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 "4.4") 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 1.50.0

In Bioconductor since BioC 2.10 (R-2.15) (13 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_1.50.0.tar.gz

Windows Binary (x86_64) ffpe_1.50.0.zip

macOS Binary (x86_64) ffpe_1.50.0.tgz

macOS Binary (arm64) ffpe_1.50.0.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/

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