Package: clinvar-this
ClinVar This!ClinVar Submission via API Made EasyFree software: MIT licenseDocumentation:https://clinvar-this.readthedocs.io/en/latest/Discussion Forum:https://github.com/bihealth/clinvar-this/discussionsBug Reports:https://github.com/bihealth/clinvar-this/issuesGetting StartedDocumentationYou can find comprehensive documentation here:https://clinvar-this.readthedocs.io/en/latest/A good place to start is:"Getting Started" in the documentationChangelog0.14.6(2023-12-15)Bug Fixesinclude JSON schemas in package (#184) (c3dc65a)0.14.5(2023-12-13)Bug Fixesfixing MANIFEST.in for so py.typed are included (#182) (3015b32)0.14.4(2023-12-13)Bug Fixesadding missing py.typed files for mypy (#180) (3b5945a)0.14.3(2023-12-12)Bug Fixesfixing counter types (#178) (0b23c6b)0.14.2(2023-12-12)Bug Fixesresolve dictionary dump enum issue (#176) (a6a6c20)0.14.1(2023-12-11)Bug Fixesserialization of counter dict (#174) (06caa81)0.14.0(2023-12-11)Featuresadding 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 Fixesadding support for "no classification from unflagged records" review status (#171) (f144e74)0.13.1(2023-12-04)Bug Fixespinning python to 3.11 in release for setuptools (#164) (afb6035)0.13.0(2023-12-04)Featuresadapt to ClinVar public XML update (#162) (8d90a36)0.12.0(2023-10-18)Featuresinclude VCV and title in "clinvar-data extract-vars" (#152) (c3e1bf2)0.11.0(2023-10-06)FeaturesAdding 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 Fixesmypy linting of tests (#144) (ee1fc5d)DocumentationUpdate docs on file formats and fixing errors (#150) (0b9efc6)0.10.2(2023-09-11)Bug Fixestypo accession => accession (#135) (9ac72a2)0.10.1(2023-09-11)Bug Fixesproperly write out variants to JSONL (#133) (17b7e5c)0.10.0(2023-09-08)Featureswrite out HGNC identifier with variants (#130) (#131) (ea33100)0.9.0(2023-09-08)Featureswrite assessment to extract variants (#128) (dd72c90)Bug Fixesnormalizing molecular consequence (#126) (c2a72cf)0.8.0(2023-09-08)Featuresvariant extraction (#124) (c7bb7c9)0.7.0(2023-09-07)Featureswriting out clinical significance in gene-to-phenotype link (#121) (1c65fc6)0.6.0(2023-09-07)Featureswrite out organisation and local key to phenotype gene link (#119) (f87facc)0.5.0(2023-09-07)Featuresallow read/write .gz everywhere (#116) (d3b658e)0.4.1(2023-09-06)Bug Fixesadding clinvar_data to built package (#114) (4a78256)0.4.0(2023-09-06)Featuresadd 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 Fixesmaking conversion more robust, indicate errors (#105) (8333aea)0.3.0(2023-09-04)Featuresremoving versioneer in favour of version from release-please (#95) (5b922bb)Bug Fixesusing varfish-bot token for release-please (#97) (35fad52)0.2.1(2023-03-17)Bug Fixesfixing strucvar export (#84) (1050a67)sequence variant export (#82) (0fe3fb9)0.2.0(2023-03-15)Featuresadd support for SV TSV files (#75) (#78) (d4fffce)Documentationadd 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)Featuresadd 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 Fixesinterpret TSV OMIM "not provided" (#57) (#58) (b655097)Documentationadd getting started tutorial to README (#45) (#61) (3de084b)