Release notes

Here are the latest tool updates in the Public Apps gallery on the CGC:

• Regenie - Whole genome regression analysis tool.

• Vcfanno - Variant annotator.

• SHAPEIT5 - Phasing toolkit that includes: SHAPEIT5 phase_common, SHAPEIT5 phase_rare, SHAPEIT5 ligate.

• PLINK2 - Population genetics toolkit.

• UMI-tools - UMIs manipulation toolkit: UMI-tools Count-tab, UMI-tools Count, UMI-tools Group, UMI-tools Dedup, UMI-tools Extract, UMI-tools Whitelist.

• BCFtools: BCFtools Annotate, BCFtools Call, BCFtools CNV, BCFtools Concat, BCFtools Consensus, BCFtools Convert, BCFtools CSQ, BCFtools Filter, BCFtools GTcheck, BCFtools Index, BCFtools Isec, BCFtools Mpileup, BCFtools Query, BCFtools Reheader, BCFtools Roh, BCFtools Sort, BCFtools Stats, BCFtools View, BCFtools Merge, BCFtools Norm.

• Indexcov - Fast QC checks from BAI/CRAI files.

• Variant Effect Predictor - Variant annotator.

• AnnotSV - Annotation and ranking of SV variants.

• Personal Cancer Genome Reporter - Functional annotation and classification of somatic variants.