Comments (2)
Original comment by Reece Hart (Bitbucket: reece, GitHub: reece):
Removing milestone: milestone 4 (automated comment)
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Original comment by Rudolph Rico (Bitbucket: rrico, GitHub: rrico):
Fix is in; only change was pro_subst will accept an AA or '?', and AASub() needed to handle alt='?'. Might want to revisit this in the context of a more general 'uncertain' state.
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Related Issues (20)
- How to properly handle selenoproteins HOT 3
- Consider exposing a utility for converting between g. variants by leveraging pyliftover HOT 6
- make develop not working HOT 1
- c_to_p at intron/exon boundary where splice region is preserved HOT 3
- c_to_p for dups that start in transcript but end in UTR HOT 10
- Coordinate is out of bounds error when roundtripping GRCh38 variants via `g_to_c` + `c_to_g` and `relevant_transcripts` HOT 5
- Problems hgvs between build 37 and 38 HOT 4
- Modify parser to include common errors to provide better error messages than "syntax error" HOT 3
- Investigate and improve hgvs performance HOT 2
- Babelfish vcf conversion errors - case sensitivity, multi-base identities HOT 1
- `g_to_t` for promoter regions HOT 2
- p type cannot be validated HOT 1
- For start loss AARefAlt.format always returns 3 letter amino acid even when single letter amino acid is configured
- CDS phase (frame offset for eg ribo slippage) not taken into account in amino acid translation
- Update default config to uta v20210129b?
- Support transcript identifiers (in parentheses) in variants HOT 1
- Global configuration item not always being used
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- babelfish VCF to g.HGVS fails when contig accession used as chromosome name
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