Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
Geraldine_VdAuwera Cambridge, MAMember, Administrator, Broadie admin
edited July 14 in Best Practices Workflows
This document is under construction. It aims to provide an overview of use cases covered by GATK Best Practices workflows.
|Data pre-processing||Single-sample||Single-sample||Same workflow applies to all|
|Short variants: SNPs and Indels||Single-sample & Joint Calling||Tumor-Normal & Tumor-Only|
|Copy Number Variants (CNVs)||Multisample||Tumor-Normal & Tumor-Only|
|Structural Variants (SVs)||In progress||TBD|
|Special use cases||Notes|
|Metagenomic analysis (PathSeq)|
|Mitochondrial short variants|
|Liquid blood biopsy|
Post edited by Geraldine_VdAuwera on