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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.

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Installation

1. Install devtools from CRAN (if you don't have it already)

install.packages('devtools')

2. Install gUtils

devtools::install_github('mskilab/gUtils')

3. Install fishHook

devtools::install_github('mskilab/fishHook')

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Documentation

fishHook Tutorial

fishHook Developer Reference

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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.