InvestigateIntegrations

A suite of workflows to analyze the distribution of integration site in different genomic features.

Installation

Dependencies

hotROCs

devtools::install_github('agmcfarland/hotROCs')

Package

devtools::install_github('agmcfarland/InvestigateIntegrations')

Workflows

1. hotROCs R values, with heatmap visualization.

2. Analysis of percentage integrations counts using bootstrapped simulations, with distribution visualization.

3. Genomic repeat categorization.

   • Formatting multihit clusters into repeat tables.

   • Combine with unqiue integration repeat calls.

4. Annotate integration sites with RefSeq information.