R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after correcting for genomic covariates.
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DESCRIPTION
NAMESPACE
README.md
fishHook.pdf

README.md

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fishHook

R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in arbitrary (sets of) genomic intervals after correcting for genomic covariates, e.g. replication timing, sequence context, chromatin state.

License: GPL v3

Installation

  1. Install devtools from CRAN (if you don't have it already)
install.packages('devtools')
  1. Install gUtils
devtools::install_github('mskilab/gUtils')
  1. Install fishHook
devtools::install_github('mskilab/fishHook')

Documentation

fishHook Tutorial

fishHook Developer Reference

Attributions

Marcin Imielinski - Assistant Professor, Weill-Cornell Medical College. Core Member, New York Genome Center.

Zoran Gajic - Undergraduate Research Assistant, Rutgers University, Weill Cornell Medicine, New York Genome Center.