Polyfit

This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see Polyfit.

Add-on to DESeq to improve p-values and q-values


Bioconductor version: 3.9

Polyfit is an add-on to the packages DESeq which ensures the p-value distribution is uniform over the interval [0, 1] for data satisfying the null hypothesis of no differential expression, and uses an adpated Storey-Tibshiran method to calculate q-values.

Author: Conrad Burden

Maintainer: Conrad Burden <conrad.burden at anu.edu.au>

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

Installation

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


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

BiocManager::install("Polyfit")

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("Polyfit")
Polyfit PDF R Script
Reference Manual PDF

Details

biocViews DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software
Version 1.18.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 years)
License GPL (>= 3)
Depends DESeq
Imports
System Requirements
URL
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Suggests BiocStyle
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Imports Me
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Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package Polyfit_1.18.0.tar.gz
Windows Binary Polyfit_1.18.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) Polyfit_1.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Polyfit
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Polyfit
Bioc Package Browser https://code.bioconductor.org/browse/Polyfit/
Package Short Url https://bioconductor.org/packages/Polyfit/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive