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@nakib103 nakib103 released this 08 Feb 16:59
release/109.0
393b799

New plugin (supported on CLI):

  • GWAS - reports genome-wide association study data from GWAS catalog

Plugins now available in REST and web:

  • UTRAnnotator - annotates the effect of 5' UTR variant especially for variant creating/disrupting upstream ORFs

Plugins now available in REST:

  • NMD - predicts if a variant allows transcript to escape nonsense-mediated mRNA decay based on certain rules
  • Plugin LOEUF replaces Loftool in the web with more recent ‘loss-of-function’ score for variants

Deprecated Plugins:

  • miRNA - this plugin was fully deprecated in favour of --mirna flag (in web and REST)
  • ExAC - this plugin was deprecated given that VEP cache includes ExAC data as part of gnomAD

Other changes:

  • VEP Docker image now includes all VEP plugins
  • SIFT version has been updated from 5.2.2 to 6.2.1 (except for human GRCh37)
  • PolyPhen-2 version has been updated from 2.2.2 to 2.2.3 (except for human GRCh37)
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