VEP 110

Merge pull request #18 from sigven/vep_110

VEP 110 + SIF file

1.6.0

• Updated databundle
• New script to download bundle (VEP + gvanno custom cache)
• Added oncogenicity annotation

v1.5.1

Added option —vep_coding_only

v1.5.0

VEP 107
ClinVar September 2022
GWAS catalog August 2022
GENCODE 41/19
CancerMine v47

VEP 105

• Data updates (ClinVar, CancerMine, GENCODE, GWAS catalog, Open Targets Platform, PFAM, UniProt KB)
• VEP update (v105, GENCODE v39 (grch38))

August 2021 data update

• Updates of ClinVar, GWAS catalog, UniProt, Open Targets Platform, CancerMine

VEP 104 - regulatory annotations

• Addition of regulatory annotations (VEP, ncER algorithm)
• Software/data updates: VEP 104, ClinVar May 2021, UniProt (April 2021), GWAS catalog (May 2021), Pfam (March 2021), dbNSFP (March 2021), Open Targets Platform (February 2021)
• Singularity setup for v3.0 only

VEP 102 - GENCODE 36

• Data updates (ClinVar, Open Targets Platform, UniProt, GWAS Catalog)
• VEP update (102) - GENCODE update (36 for GRCh38)
• DisGenet annotations skipped

No TOML

• September 2020 data updates
• Removal of TOML file for configurations - now provided as arguments to main Python script
• VEP 101

Summer 2020 data updates

• Multiple updates to underlying variant/gene annotation sources (ClinVar, dbNSFP, Pfam, GWAS catalog, Open Targets Platform, DisGenet)
• Addition of VEP plugin NearestExonJB to retrieve relative position of variants in exon/introns