ClinVar Submission via API Made Easy
Project description
ClinVar This!
ClinVar Submission via API Made Easy
- Free software: MIT license
- Documentation: https://clinvar-this.readthedocs.io/en/latest/
- Discussion Forum: https://github.com/bihealth/clinvar-this/discussions
- Bug Reports: https://github.com/bihealth/clinvar-this/issues
Getting Started
Documentation
You can find comprehensive documentation here:
A good place to start is:
Changelog
0.15.5 (2024-05-29)
Bug Fixes
0.15.4 (2024-05-28)
Bug Fixes
0.15.3 (2024-05-28)
Bug Fixes
Documentation
0.15.2 (2024-05-28)
Bug Fixes
0.15.1 (2024-05-28)
Bug Fixes
0.15.0 (2024-05-28)
⚠ BREAKING CHANGES
- adjusting to new XML structure with germline/somatic split (#201)
Features
0.14.6 (2023-12-15)
Bug Fixes
0.14.5 (2023-12-13)
Bug Fixes
0.14.4 (2023-12-13)
Bug Fixes
0.14.3 (2023-12-12)
Bug Fixes
0.14.2 (2023-12-12)
Bug Fixes
0.14.1 (2023-12-11)
Bug Fixes
0.14.0 (2023-12-11)
Features
- adding async client code via switch to httpx (#167) (#170) (7b76770)
- switch from attrs to pydantic (#166) (#168) (d84db77)
- updating to latest upstream JSON schemas (#173) (f5da1fc)
- write out RCV/VCV version in extract_vars and phenotype_link (#159) (#172) (534cba1)
Bug Fixes
0.13.1 (2023-12-04)
Bug Fixes
0.13.0 (2023-12-04)
Features
0.12.0 (2023-10-18)
Features
0.11.0 (2023-10-06)
Features
- Adding Clinvar Accession to TSV input (#146) (1ef8b8f)
- Implement Pubmed IDs in tsv import format (#143) (9473380)
- Support multiple condition types and multiple conditions (#147) (f972356)
Bug Fixes
Documentation
0.10.2 (2023-09-11)
Bug Fixes
0.10.1 (2023-09-11)
Bug Fixes
0.10.0 (2023-09-08)
Features
0.9.0 (2023-09-08)
Features
Bug Fixes
0.8.0 (2023-09-08)
Features
0.7.0 (2023-09-07)
Features
0.6.0 (2023-09-07)
Features
0.5.0 (2023-09-07)
Features
0.4.1 (2023-09-06)
Bug Fixes
0.4.0 (2023-09-06)
Features
- add command to extract gene-to-phenotype links (#104) (#106) (b3b323a)
- adding --version option (#110) (7f3b091)
- adding command to generate per-gene impact report (#102) (#103) (c86a5c7)
- adding missing clinvar measure set (#109) (f0f64e0)
- adding support for parsing ClinVar XML (#99) (#100) (c673f7d)
- command to extract variants per ACMG class and freq. (#107) (#108) (c623f6d)
Bug Fixes
0.3.0 (2023-09-04)
Features
Bug Fixes
0.2.1 (2023-03-17)
Bug Fixes
0.2.0 (2023-03-15)
Features
Documentation
- add badges to readme (#65) (207038c)
- adding file format documentation (#71) (3a04ffd)
- extending docs; getting started from README (#44) (#68) (77892f0)
- updating docs introduction section (#67) (d6c865b)
0.1.0 (2022-12-02)
Features
- add basic config management in CLI (#32) (#33) (c903546)
- add functions for managing batch data (#34, #37) (#35) (0c7e0f9)
- add sphinx-based documentation (#30) (#31) (d10adc5)
- add tests for submission messages (#19) (#22) (b168d47)
- add unit tests for submission messages (#19) (#20) (1c4e11a)
- adding mypy type checking (#11) (#12) (700994a)
- adjust to ClinVar API change (Nov 2022) (#47) (#48) (0e4fb50)
- allow annotation with HPO terms in TSV format (#50) (#56) (0b0da41)
- allow import of extra columns (#53) (#54) (616bfe7)
- completing enums (#23) (#24) (9198983)
- implement api models (#4) (#5) (3690c36)
- implement attrs-based message models (#1) (#2) (f253c24)
- implement enums for submission messages (#14) (#16) (201cbe4)
- implement internal models for submissions (#9) (#26) (be04e40)
- implement minimal TSV format (#17) (#18) (960827d)
- implement models for extra files (#6) (#13) (852e4c6)
- implement models for submission message (#8) (#15) (90afd10)
- implement more columns in TSV (#39) (#55) (6184d76)
- implementing REST clinvar_api.client module (#28) (#29) (829d907)
- store errors from "batch retrieve" (#59) (#60) (67b8b0c)
- write data into profile sub directory (#52) (e699736)
Bug Fixes
Documentation
Project details
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