Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / charite/jannovar issues and pull requests

#534 - Bump log4j-core from 2.15.0 to 2.16.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#534 - Bump log4j-core from 2.15.0 to 2.16.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#533 - broken links to datasets download

Issue - State: closed - Opened by myeelaw over 2 years ago - 2 comments
Labels: bug

#532 - Problem of HGVSc conversion

Issue - State: closed - Opened by smw1414 almost 3 years ago - 1 comment
Labels: bug

#531 - RefSeq datasets for mm11

Issue - State: closed - Opened by myeelaw almost 3 years ago - 7 comments
Labels: enhancement

#531 - RefSeq datasets for mm11

Issue - State: closed - Opened by myeelaw almost 3 years ago - 7 comments
Labels: enhancement

#530 - Report the effect for every genes

Issue - State: open - Opened by smw1414 about 3 years ago - 1 comment
Labels: enhancement

#530 - Report the effect for every genes

Issue - State: open - Opened by smw1414 about 3 years ago - 1 comment
Labels: enhancement

#529 - HGVS-VCF bug ( de.charite.compbio.jannovar.hgvs.bridge.CannotTranslateHGVSVariant: No transcript )

Issue - State: closed - Opened by mansi800 about 3 years ago - 1 comment
Labels: bug

#529 - HGVS-VCF bug ( de.charite.compbio.jannovar.hgvs.bridge.CannotTranslateHGVSVariant: No transcript )

Issue - State: closed - Opened by mansi800 about 3 years ago - 1 comment
Labels: bug

#528 - Fix for #519 - add support for HGVS repeats

Pull Request - State: closed - Opened by markwoon about 3 years ago - 6 comments

#528 - Fix for #519 - add support for HGVS repeats

Pull Request - State: closed - Opened by markwoon about 3 years ago - 6 comments

#525 - Fix projections on GRCh38

Pull Request - State: closed - Opened by holtgrewe about 3 years ago - 1 comment
Labels: fix

#525 - Fix projections on GRCh38

Pull Request - State: closed - Opened by holtgrewe about 3 years ago - 1 comment
Labels: fix

#524 - Problems with projection of dbSNP variants and RefSeq for hg38

Issue - State: closed - Opened by holtgrewe about 3 years ago - 2 comments
Labels: bug

#523 - Remove support for UCSC transcripts

Issue - State: open - Opened by holtgrewe about 3 years ago - 5 comments
Labels: enhancement

#523 - Remove support for UCSC transcripts

Issue - State: open - Opened by holtgrewe about 3 years ago - 5 comments
Labels: enhancement

#522 - Adding raw data download & database build scripts

Pull Request - State: closed - Opened by holtgrewe about 3 years ago - 1 comment
Labels: enhancement

#522 - Adding raw data download & database build scripts

Pull Request - State: closed - Opened by holtgrewe about 3 years ago - 1 comment
Labels: enhancement

#521 - Use single branch instead of develop/master split.

Issue - State: open - Opened by holtgrewe about 3 years ago - 2 comments
Labels: enhancement

#520 - Junit 5 migration

Pull Request - State: closed - Opened by holtgrewe about 3 years ago - 2 comments
Labels: enhancement

#520 - Junit 5 migration

Pull Request - State: closed - Opened by holtgrewe about 3 years ago - 2 comments
Labels: enhancement

#519 - Complete support for parsing HGVS nucleotide expressions.

Issue - State: open - Opened by holtgrewe about 3 years ago - 5 comments
Labels: enhancement, help wanted

#519 - Complete support for parsing HGVS nucleotide expressions.

Issue - State: open - Opened by holtgrewe about 3 years ago - 5 comments
Labels: enhancement, help wanted

#518 - Fixing problem with HGVS delins with del bases but no ins bases (#491).

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#518 - Fixing problem with HGVS delins with del bases but no ins bases (#491).

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#517 - Implementing HGVS unchanged nucleic acid sequence.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#517 - Implementing HGVS unchanged nucleic acid sequence.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#516 - Implement HGVS parsing for protein sequences

Issue - State: open - Opened by holtgrewe about 3 years ago
Labels: enhancement, help wanted

#516 - Implement HGVS parsing for protein sequences

Issue - State: open - Opened by holtgrewe about 3 years ago
Labels: enhancement, help wanted

#515 - Adding variant annotation via H2 databases.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#515 - Adding variant annotation via H2 databases.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#514 - Removing support for hg18/GRCh36.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#514 - Removing support for hg18/GRCh36.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#513 - Deposit static files into Zenodo

Issue - State: closed - Opened by holtgrewe about 3 years ago - 8 comments
Labels: enhancement

#513 - Deposit static files into Zenodo

Issue - State: closed - Opened by holtgrewe about 3 years ago - 8 comments
Labels: enhancement

#512 - Fix for right-shifting deletions on AA sequences.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago - 1 comment

#512 - Fix for right-shifting deletions on AA sequences.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago - 1 comment

#511 - Refurbish vardbs/frequency annotation

Issue - State: closed - Opened by holtgrewe about 3 years ago - 1 comment
Labels: enhancement

#511 - Refurbish vardbs/frequency annotation

Issue - State: closed - Opened by holtgrewe about 3 years ago - 1 comment
Labels: enhancement

#510 - Migrating to Github Workflows for CI.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#510 - Migrating to Github Workflows for CI.

Pull Request - State: closed - Opened by holtgrewe about 3 years ago

#509 - Bump commons-io from 2.4 to 2.7 in /jannovar-htsjdk

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago
Labels: dependencies

#509 - Bump commons-io from 2.4 to 2.7 in /jannovar-htsjdk

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago
Labels: dependencies

#508 - Bump commons-io from 2.4 to 2.7 in /jannovar-core

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago
Labels: dependencies

#508 - Bump commons-io from 2.4 to 2.7 in /jannovar-core

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago
Labels: dependencies

#507 - beginning junit 5 migration

Pull Request - State: closed - Opened by pnrobinson over 3 years ago - 3 comments

#507 - beginning junit 5 migration

Pull Request - State: closed - Opened by pnrobinson over 3 years ago - 3 comments

#506 - Contig as replacement for ReferenceDictionary in GenomePosition

Pull Request - State: closed - Opened by julesjacobsen over 3 years ago

#506 - Contig as replacement for ReferenceDictionary in GenomePosition

Pull Request - State: closed - Opened by julesjacobsen over 3 years ago

#505 - JUNIT 5

Issue - State: closed - Opened by pnrobinson over 3 years ago - 5 comments

#505 - JUNIT 5

Issue - State: closed - Opened by pnrobinson over 3 years ago - 5 comments

#504 - Remove INI support for hg18

Issue - State: closed - Opened by pnrobinson over 3 years ago

#504 - Remove INI support for hg18

Issue - State: closed - Opened by pnrobinson over 3 years ago

#503 - --show-all option not properly worked

Issue - State: closed - Opened by smw1414 over 3 years ago - 2 comments

#503 - --show-all option not properly worked

Issue - State: closed - Opened by smw1414 over 3 years ago - 2 comments

#502 - Bump junit from 4.12 to 4.13.1

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#502 - Bump junit from 4.12 to 4.13.1

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#501 - mitochondrial genetic code

Issue - State: closed - Opened by smw1414 almost 4 years ago - 1 comment
Labels: bug

#500 - NCBI urls are out-of-date

Issue - State: closed - Opened by phwhite-coh almost 4 years ago - 5 comments

#500 - NCBI urls are out-of-date

Issue - State: closed - Opened by phwhite-coh almost 4 years ago - 5 comments

#499 - Fix right-shifting deletions on AA sequence (fixes #498)

Pull Request - State: closed - Opened by roland-ewald almost 4 years ago - 5 comments

#498 - Faulty right-shifting of deletions for protein annotations

Issue - State: closed - Opened by roland-ewald almost 4 years ago

#498 - Faulty right-shifting of deletions for protein annotations

Issue - State: closed - Opened by roland-ewald almost 4 years ago

#497 - Error with chr_accessions_GRCh38.p12

Issue - State: closed - Opened by pnrobinson almost 4 years ago

#497 - Error with chr_accessions_GRCh38.p12

Issue - State: closed - Opened by pnrobinson almost 4 years ago

#496 - Step by step procedure

Issue - State: closed - Opened by KarthickRajaNarayanan almost 4 years ago - 4 comments

#496 - Step by step procedure

Issue - State: closed - Opened by KarthickRajaNarayanan almost 4 years ago - 4 comments

#495 - Error while trying to download human hg-19 reference using jannovar v 0.34 installed via bioconda

Issue - State: closed - Opened by guglusharma almost 4 years ago - 7 comments
Labels: bug

#495 - Error while trying to download human hg-19 reference using jannovar v 0.34 installed via bioconda

Issue - State: closed - Opened by guglusharma almost 4 years ago - 7 comments
Labels: bug

#494 - Bump log4j.version from 2.11.2 to 2.13.3

Pull Request - State: closed - Opened by dependabot[bot] about 4 years ago
Labels: dependencies

#494 - Bump log4j.version from 2.11.2 to 2.13.3

Pull Request - State: closed - Opened by dependabot[bot] about 4 years ago
Labels: dependencies

#493 - Cannot parse HGVS `NP_000095.2:p.Gly168_His169=`

Issue - State: closed - Opened by markwoon about 4 years ago - 3 comments

#493 - Cannot parse HGVS `NP_000095.2:p.Gly168_His169=`

Issue - State: closed - Opened by markwoon about 4 years ago - 3 comments

#492 - unable to download Mouse transcript databases

Issue - State: closed - Opened by myeelaw about 4 years ago - 1 comment

#492 - unable to download Mouse transcript databases

Issue - State: closed - Opened by myeelaw about 4 years ago - 1 comment

#491 - Problem parsing HGVS `delins`

Issue - State: closed - Opened by markwoon about 4 years ago - 2 comments

#490 - Cannot parse HGVS repeats

Issue - State: open - Opened by markwoon about 4 years ago - 1 comment
Labels: enhancement, help wanted

#490 - Cannot parse HGVS repeats

Issue - State: open - Opened by markwoon about 4 years ago - 1 comment
Labels: enhancement, help wanted

#489 - `default_sources.ini` seems not to cover all download links

Issue - State: closed - Opened by stolpeo about 4 years ago

#489 - `default_sources.ini` seems not to cover all download links

Issue - State: closed - Opened by stolpeo about 4 years ago

#488 - Fixes for default_sources.ini

Pull Request - State: closed - Opened by stolpeo about 4 years ago - 3 comments

#488 - Fixes for default_sources.ini

Pull Request - State: closed - Opened by stolpeo about 4 years ago - 3 comments

#487 - Download/processing of hg19/* fails

Issue - State: closed - Opened by stolpeo about 4 years ago - 1 comment

#487 - Download/processing of hg19/* fails

Issue - State: closed - Opened by stolpeo about 4 years ago - 1 comment

#486 - Building ReferenceDictionary fails for hg19/*

Issue - State: closed - Opened by stolpeo about 4 years ago - 16 comments

#486 - Building ReferenceDictionary fails for hg19/*

Issue - State: closed - Opened by stolpeo about 4 years ago - 16 comments

#485 - Update hg19 chrToAccessions source

Pull Request - State: closed - Opened by dcroote about 4 years ago - 2 comments

#485 - Update hg19 chrToAccessions source

Pull Request - State: closed - Opened by dcroote about 4 years ago - 2 comments

#484 - -d hg38/refseq not found

Issue - State: closed - Opened by pnrobinson over 4 years ago - 1 comment

#484 - -d hg38/refseq not found

Issue - State: closed - Opened by pnrobinson over 4 years ago - 1 comment

#483 - Translation of HGVS into VCF stalls when writing VCF file with some mutations

Issue - State: closed - Opened by mmcneill123 over 4 years ago - 4 comments
Labels: bug

#483 - Translation of HGVS into VCF stalls when writing VCF file with some mutations

Issue - State: closed - Opened by mmcneill123 over 4 years ago - 4 comments
Labels: bug

#482 - ERROR: [ERROR] Input string for the chromosomal change

Issue - State: closed - Opened by zillurbmb51 over 4 years ago - 1 comment

#482 - ERROR: [ERROR] Input string for the chromosomal change

Issue - State: closed - Opened by zillurbmb51 over 4 years ago - 1 comment

#479 - Update Genotype internals to pre-calculate values

Pull Request - State: closed - Opened by julesjacobsen over 4 years ago - 1 comment

#479 - Update Genotype internals to pre-calculate values

Pull Request - State: closed - Opened by julesjacobsen over 4 years ago - 1 comment