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Bioconductor - panp (development version)

panp

This is the development version of panp; for the stable release version, see panp.

Presence-Absence Calls from Negative Strand Matching Probesets

Bioconductor version: Development (3.22)

A function to make gene presence/absence calls based on distance from negative strand matching probesets (NSMP) which are derived from Affymetrix annotation. PANP is applied after gene expression values are created, and therefore can be used after any preprocessing method such as MAS5 or GCRMA, or PM-only methods like RMA. NSMP sets have been established for the HGU133A and HGU133-Plus-2.0 chipsets to date.

Author: Peter Warren

Maintainer: Peter Warren <peter.warren at verizon.net>

Citation (from within R, enter citation("panp")): Installation

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("panp")

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("panp")
Details biocViews Infrastructure, Software Version 1.79.0 In Bioconductor since BioC 1.8 (R-2.3) (19 years) License GPL (>= 2) Depends R (>= 2.10), affy(>= 1.23.4), Biobase(>= 2.5.5) Imports Biobase, methods, stats, utils System Requirements URL See More Suggests gcrma 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.

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