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.

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')

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.