Workflow Type: Shell Script
Open
Work-in-progress
Germline-ShortV @ NCI-Gadi is an implementation of the BROAD Institute's best practice workflow for germline short variant discovery. This implementation is optimised for the National Compute Infrastucture's Gadi HPC, utilising scatter-gather parallelism to enable use of multiple nodes with high CPU or memory efficiency. This workflow requires sample BAM files, which can be generated using the Fastq-to-bam @ NCI-Gadi pipeline. Germline-ShortV can be applied to model and non-model organisms (including non-diploid organisms).
Infrastructure_deployment_metadata: Gadi (NCI)
Version History
Version 1 (earliest) Created 17th Aug 2021 at 05:35 by Tracy Chew
Added/updated 2 files
Open
master
a302549
Creators and Submitter
Creators
Additional credit
Cali Willet
Submitter
Discussion Channel
Citation
Sadsad, R., Samaha, G., & Chew, T. (2021). Germline-ShortV @ NCI-Gadi. WorkflowHub. https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.143.1
Activity
Views: 3469 Downloads: 300
Created: 17th Aug 2021 at 05:35
Last updated: 9th Sep 2021 at 02:34
Annotated Properties
Topic annotations
Genomics, DNA mutation, Whole genome sequencing, Population genomics, Genetic variation, DNA polymorphism
Operation annotations
Tags
Attributions
None
Collections