Matthew Downton
SEEK ID: https://workflowhub.eu/people/909
Location:
Australia
ORCID:
https://orcid.org/0000-0002-4693-1965
Joined: 5th Dec 2024
Expertise: Not specified
Tools: Not specified
Their tagsRelated items
The Australian BioCommons enhances digital life science research through world class collaborative distributed infrastructure. It aims to ensure that Australian life science research remains globally competitive, through sustained strategic leadership, research community engagement, digital service provision, training and support.
Teams: Australian BioCommons, QCIF Bioinformatics, Pawsey Supercomputing Research Centre, Sydney Informatics Hub, Janis, Melbourne Data Analytics Platform (MDAP), Galaxy Australia, National Computational Infrastructure (NCI) WorkflowHub team
Web page: https://www.biocommons.org.au/
The National Computational Infrastructure (NCI) is one of Australia’s leading Tier-1 facilities for high-performance computing, data, and storage. It provides specialised services to support bioinformatics workflows, alongside a wide range of applications in science, government, and industry.
Space: Australian BioCommons
Public web page: https://nci.org.au
Nextflow Pipeline for DeepVariant
This repository contains a Nextflow pipeline for Google’s DeepVariant, optimised for execution on NCI Gadi.
Quickstart Guide
- Edit the
pipeline_params.ymlfile to include:
samples: a list of samples, where each sample includes the sample name, BAM file path (ensure corresponding .bai is in the same directory), path to an optional regions-of-interest BED file (set to''if not required), and the model type.ref: path to the reference FASTA (ensure ...
