PWMEnrich

PWM enrichment analysis

Bioconductor version: Release (2.11)

Asses the enrichment of already known PWMs (e.g. from JASPAR) in DNA sequences. Motif hits in a sequence or DNA region are considered together and P-values derived for their joint pattern. The package implements multiple algorithms, including fixed-threshold (Z-score) and threshold-free (Lognormal normalization and Clover) methods. The main goal is to identify a set of transcription factors that most likely bind to a single sequence, group of sequences, or show significantly different binding affinity between two sets of sequences.

Author: Robert Stojnic

Maintainer: Robert Stojnic <robert.stojnic at gmail.com>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("PWMEnrich")

To cite this package in a publication, start R and enter:

    citation("PWMEnrich")

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