TronFlow is an open source collection of computational workflows originally conceived for tumor-normal somatic variant calling over whole exome data and the manipulation of BAM and VCF files with the aim of having comparable and analysis-ready data. Over time, we have extended it to germline variant calling, copy numbers and other related technologies and analyses.
Its modular architecture covers different analytical and methodological use cases that allow analysing FASTQ files into analysis-ready ...
Maintainers: Pablo Riesgo Ferreiro
Number of items: 2
Tags: Alignment, Annotation, Nextflow, variant calling, VCF, Mutect2, HaplotyeCaller, Strelka2
Somatic-ShortV @ NCI-Gadi is a variant calling pipeline that calls somatic short variants (SNPs and indels) from tumour and matched normal BAM files following GATK's Best Practice Workflow. This workflow is designed for the National Computational Infrastructure's (NCI) Gadi supercompter, leveraging multiple nodes on NCI Gadi to run all stages of the workflow in parallel. ...
Type: Shell Script
Creators: Tracy Chew, Rosemarie Sadsad, Cali Willet
Submitter: Tracy Chew
Variant Interpretation Pipeline (VIP) that annotates, filters and reports prioritized causal variants in humans, see https://github.com/molgenis/vip for more information.
Type: Unrecognized workflow type
Submitter: Dennis Hendriksen