Copyright (c) 2023-Present, Ryan L. Collins, Noah Fields, and the Van Allen, Gusev, and Haigis laboratories at Dana-Farber Cancer Institute. Distributed under terms of the GNU GPL v2.0 License (see LICENSE).
Note: this repository is under active development. More documentation will be added as the project evolves.
This repository contains the working code and scripts used to detect, genotype, filter, and annotate germline variants from germline WGS across cancer types. This code also contains code to analyze and graph results.
| Directory | Description |
|---|---|
docker/ |
Instructions for building project-related Docker images |
refs/ |
Reference .jsons and dotfiles |
scripts/ |
Stand-alone scripts called by various workflows |
shell/ |
Shell snippets for running specific processes or analyses |
src/ |
Source code for the g2cpy and G2CR companion libraries |
wdl/ |
Stand-alone WDL workflows |