kbolton-lab Goto Github PK

analysis-wdls

Early stages of converting genome/analysis-workflows from CWL to WDL

analysis-workflows

Open workflow definitions for genomic analysis from MGI at WUSM.

arch

bioconda-recipes

Conda recipes for the bioconda channel.

bolton_nature_genetics_ch

Code for Kelly Bolton Nature Genetics Paper

bolton_occc

Code to generate figures found in Bolton et al. Molecular subclasses of clear cell ovarian carcinoma and their impact on disease behavior and outcomes

bolton_papers

ccr_proteomics

ch-toolkit

A collection of utilities and tools used in the clonal hematopoiesis (CH) pipeline.

ch_2021

Source code in "Combined landscape of single-nucleotide variants and copy-number alterations in clonal hematopoiesis".

childhoodsurvivorship

Repository to store public data and code to generate the figures for Blood Advances: "Clonal Hematopoiesis in Survivors of Childhood Cancer"

docs

Tools and docs on how to do things

gatk

Official code repository for GATK versions 1.0 through 3.7 (core engine). For GATK 4 code, see the https://github.com/broadinstitute/gatk repository

genome

Core modules used by the GMS

getbasecountsmultisample

maester_wdl

WDL for MAESTER

reference

terra-wdls

WDLs designed to be run on TERRA bio

ukbb-air-pollution

Replicating results showing air pollution and increased risk of lung cancer in UKBB cohort. Exploring air pollution and risk of developing CH.