ffpe

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see ffpe.

Quality assessment and control for FFPE microarray expression data


Bioconductor version: 3.14

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 "4.1") 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

Details

biocViews GeneExpression, Microarray, QualityControl, Software
Version 1.38.0
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
See More
Suggests genefilter, ffpeExampleData
Linking To
Enhances
Depends On Me
Imports Me benchdamic
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_1.38.0.tar.gz
Windows Binary ffpe_1.38.0.zip
macOS 10.13 (High Sierra) ffpe_1.38.0.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 3.14 Source Archive