biocommons/hgvs

Issues

• How to apply a protein change to a given amino acid sequence to produce a mutant amino acid sequence

  #641 opened 3 years ago
  10

• Missing reference for protein change (sub)

  #640 opened 3 years ago
  2

• Parsing repeat expansions

  #639 opened 3 years ago
  1

• Dup should have an alt when available

  #638 opened 7 months ago
  6

• Using Gene symbol hgvs notation

  #637 opened 3 years ago
  1

• c_to_g(intronic_variant) takes genomic reference, ignoring reference base in hgvs_c

  #636 opened 3 years ago
  1

• Announcing cdot: a data provider to load lots of transcripts fast

  #634 opened 4 months ago
  23

• Implement caching for doctests

  #633 opened 7 months ago
  5

• How to parse complex insertions

  #631 opened 3 years ago
  1

• Migrate to github actions for testing and packaging

  #630 opened 2 years ago
  0

• AssemblyMapper confusion

  #629 opened a year ago
  1

• Add support for pulling from seqrepo-rest-service.

  #628 opened 7 months ago
  8

• h

  #627 opened 3 years ago
  0

• hgvs can not parse

  #626 opened 3 years ago
  3

• Making seqrepo optional

  #624 opened 3 years ago
  2

• Depend on psycopg2 rather than psycopg2-binary

  #623 opened 3 years ago
  2

• normalization/projection edge cases near exon/intron boundaries

  #622 opened 7 months ago
  5

• HGVS using ENSEMBL ID is not working

  #621 opened 3 years ago
  2

• test

  #619 opened 3 years ago
  0

• normalize a whole hgvs

  #618 opened 3 years ago
  4

• Babelfish using "GRCh38" when it should be using "assembly_name"

  #616 opened a year ago
  1

• VariantMapper couldn't map variant, AssemblyMapper could

  #615 opened 3 years ago
  1

• AssemblyMapper has wrong import path on documentation examples

  #614 opened 4 years ago
  1

• protein change annotation difference between hgvs and vep

  #612 opened 10 months ago
  8

• DeprecationWarning

  #611 opened 3 years ago
  2

• i am using docker compose file and to store some data i am using postgresql

  #610 opened 7 months ago
  5

• strict_bounds parameter for AssemblyMapper

  #608 opened 7 months ago
  7

• hgvs_p shows Ter, although no new stop codon got introduced.

  #607 opened 7 months ago
  5

• Index Error for variant using am37.c_to_g()

  #606 opened 4 years ago
  7

• bioconda recipe?

  #604 opened 7 months ago
  6

• Investigate replacing psycopg2 with asyncpg

  #603 opened 4 months ago
  7

• g_to_c w/strict_bounds=False results in invalid ref

  #602 opened 5 years ago
  0

• Support for fusion hgvs

  #599 opened 7 months ago
  8

• Non-human genomes in HGVS/UTA

  #598 opened 7 months ago
  8

• Implement support for custom transcript alignments

  #596 opened 5 years ago
  0

• Support for wildcards lost in the newer versions of hgvs?

  #595 opened 5 years ago
  1

• Normalizer returns n. variant when given an out-of-bounds c. variant

  #594 opened 5 years ago
  0

• move SequenceVariant.fill_ref() to separate module

  #593 opened 5 years ago
  4

• add support for n.* (out-of-bounds) transcript variants

  #592 opened 10 months ago
  2

• replace-reference fails on out-of-bounds variants

  #591 opened 5 years ago
  0

• Enable additional / alternative config via environment variables

  #589 opened 7 months ago
  5

• Question: Can the HGVS package tell you the distance to the farther exon/intron boundary?

  #588 opened 5 years ago
  1

• HGVSInvalidVariantError with c_to_g

  #587 opened 5 years ago
  1

• Make the HGVS parser as a separate package

  #586 opened 10 months ago
  6

• Eliminate unnecessary parser invocations in tests

  #585 opened a year ago
  1

• python3.7 compatibility enum34 error

  #584 opened 5 years ago
  4

• Move hgvs models to hgvs.models

  #583 opened 5 years ago
  0

• Drop transcriptmapper.py

  #582 opened 5 years ago
  1

• allele information not available for dup

  #581 opened 5 years ago
  2

• psycopg2.OperationalError: could not connect to server: Connection refused

  #580 opened 5 years ago
  7