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ProteinAlignmentBlock should account for AA sequence matches #84

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jsaquing opened this issue Sep 23, 2021 · 1 comment
Open

ProteinAlignmentBlock should account for AA sequence matches #84

jsaquing opened this issue Sep 23, 2021 · 1 comment
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enhancement New feature or request priority high priority (should be addressed within the week)

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Right now match-type pblocks are generated only from match-type tblocks. There should be an additional "abacusing" step during the generation of pblocks that allows match-type pblocks to include codons that have been substituted at the transcript level but encode the same AA. This will become especially important for analyzing protein features such as domains.
@jsaquing jsaquing added the enhancement New feature or request label Sep 23, 2021
@jsaquing jsaquing self-assigned this Sep 23, 2021
@jsaquing jsaquing added the priority high priority (should be addressed within the week) label Nov 19, 2021
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schematic of different ways substitution pblocks could have matching subregions: 1

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