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dbNSFP 4.4a update #176

Merged
merged 13 commits into from
Nov 3, 2023
Merged

dbNSFP 4.4a update #176

merged 13 commits into from
Nov 3, 2023

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erikyao
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@erikyao erikyao commented Nov 3, 2023

This PR update dbNSFP plugin to version 4.4a. Major changes include:

  1. Parser for 4.3a is refactored into V1; a new V2 parser introduced new document structure.
  2. Mappings are updated accordingly.
  3. For both V1 and V2 parser, a new column-wise configuration data structure is enabled by Column class.
  4. For V2 parser, a new field protein wraps up 27 former fields aa, genename, geneid, transcriptid, proteinid, uniprot, hgvsc, hgvsp, appris, gencode_basic, tsl, vep_canonical, refcodon, codonpos, codon_degeneracy, sift, sift4g, polyphen2, mutationassessor, fathmm, provean, vest4, revel, mvp, gmvp, mpc, and aloft
  5. For V2 parser, the former 27 field values wrapped to protein field are transformed from a dict of list values to a list of dicts

@erikyao erikyao merged commit eaad66f into master Nov 3, 2023
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