ESR-NZ/vcf_annotation_pipeline

A Snakemake workflow to filter, annotate and prepare variant call format (VCF) data for scout using GATK4, SnpSift, VEP and genmod. Designed to be used after human_genomics_pipeline.

Python

Issues

Indels removed
#20 opened 2 years ago by leahkemp
0
Error at 'genmod models' rule
#19 opened 2 years ago by leahkemp
0
Error at 'SnpSift filter proband' rule
#18 opened 2 years ago by leahkemp
0
Faulty rankscoring
#17 opened 3 years ago by leahkemp
0
Non-functioning sample wildcard (pipeline can't establish samples from input files and won't run)
#13 opened 3 years ago by leahkemp
1
Test dataset too small to run/test GPU accelerated cohort runs
#15 opened 3 years ago by leahkemp
0