0.6.0 (2024-02-08)
- bump rfl to fix strucvar parsing (#434) (#437) (715f05c)
- bump rfl to integrate plotly-based clinvar landscape (#430) (#436) (6194541)
- Change API status code for nor found ACMG ratings (#388) (#419) (ab294cd)
- Change API status code for not found bookmarks (#387) (#418) (9229358)
- Cleanup module Declarations (#458) (#459) (0f22245)
- Improvements in Literature highlighting (#427) (#431) (2d64ddb)
- integrate reev-frontend-lib as git submodule (#412) (#435) (28bc7f2)
- make home page work on mobile (360x800) resolution (#304) (#457) (23109be)
- make left-side navigation bar sticky (#439) (#441) (f25548e)
- bump rfl for gene-clinvar plot coloring (#445) (#449) (9765fe2)
- bump rfl to display correct MMSplice score (#444) (#452) (ecefe37)
- bump rfl to fix non-coding splice display (#446) (#451) (c5dd0f1)
- bump rfl to remove issue with sequenceInfo store (#447) (#450) (1d15de5)
- Fix initial superuser setup (#460) (#461) (98e6d91)
- fixing InterVar display issues after lookup failure (#443) (#448) (fec70e3)
- preventing infinite loop in ACMG predictions (#453) (212cfaf)
- resolving issues with caseInfo storage and API (#454) (#456) (2f3ea9d)
0.5.0 (2024-02-02)
- Add sorting to PanelApp (#397) (#409) (2ebdcc8)
- cleanup front-end tests (#355) (#363) (161da9e)
- Disable "server" buttons for anonymous users (#391) (#392) (bfabd6e)
- enable user feedback after fixing it on the server (#358) (a6c436f)
- Frontest test cleanup (#364) (#382) (15a565d)
- improved validation for writing bookmarks etc. (#365) (#367) (d6e0413)
- integrate AlphaMissense display in scores (#375) (385b584)
- integrate new gnomAD v4 data (#374) (fdaa808)
- integrate PanelApp in gene details card (#373) (c7c7ea8)
- Literature higlight in dark mode (#407) (#415) (2ec6845)
- more robust backend code and cleanup in tests (#354) (#356) (5306196)
- Provide linkouts for PanelApps (#408) (#414) (57f6938)
- Rounded corners for Vega plots (#394, #405) (#406) (84dfd86)
- use integrated gene-wise conditions data from annonars (#389) (#390) (7e377c9)
- Use Seqvar and LinearStrucvar whenever possible (#366) (#378) (c35ae0f)
- using links for home view examples (#349) (#353) (e0e73ee)
- ACMG criteria can not be saved to the server (#379) (#386) (8359dff)
- Adjust colors of highlightings in dark mode (#393) (#402) (5329a6b)
- adjusting VariantValidator API (#292) (#376) (63b9275)
- Expantion of MMSplice and SpliceAI scores properly handle Infinity scores (#381) (#383) (8e3efc1)
- Loading the ACMG criteria from intervar (#384) (0fefba5)
- make PDF documentation build and remove some WIP docs (#368) (#423) (c6b17f3)
- more robust handling of async sessions (#360) (#361) (86510e8)
- more robust handling of InterVar result (#362) (25c825f)
- properly handle undefined pubtator abstracts (#359) (970b400)
- Replace acmgSf data with hgnc one in PanelApp (#416) (#417) (d308661)
- resolve issues with example links on home view (#350) (#351) (714bcea)
0.4.0 (2023-12-27)
- deprecation warning for PP3_strong + PM1_strong (#324) (#341) (09129ae)
- enable Sentry user feedback (#343) (f4af00d)
- improve HPO lookup result quality with latest viguno (#338) (#346) (84d2c7b)
- integrate with PubTator 3 API (#312) (#347) (096cc85)
0.3.0 (2023-12-22)
- add conflict display between PVS1 and PM4/PP3 (#290) (#320) (223d904)
- additional
Jump to IGV
button (#297) (#299) (38c5668) - adjust landing and static pages to NAR WSI requirements (#303) (#306) (39aad72)
- allow storing case information in local storage (#247) (#339) (bec6084)
- Allow users to save acmg criteria on the server (#98) (#237) (8738ca4)
- change default presentation of ACMG criteria (#287) (#300) (454135f)
- Consistency in UI design on static pages (#219) (#283) (2bafecb)
- Display all MMSplice and SpliceAI Scores (#296) (#310) (2ebb15b)
- document acmg seq vars (#248) (#249) (ae73ca7)
- enable sentry user feedback and releases (#329) (#331) (8be007c)
- implementing ClinVar upload (#99) (#270) (d4d949e)
- Integrate cada prio web service (#213) (#220) (283209f)
- integrating sentry (#240) (#246) (732cff6)
- link out from app to documentation (#308) (#311) (bb630a0)
- Merge all static information pages into one view (#263) (#264) (61bab0b)
- more consistent UI design on gene details page (#216) (#278) (52c8a45)
- more consistent UI design on seqvar details page (#217) (#279) (b040108)
- more consistent UI design on strucvar details page (#218) (#280) (b5330af)
- more integrated search component (#258) (120128f)
- more streamlined query parsing (#257) (#259) (374377a)
- Move scores card above population frequencies card (#294) (#301) (2db9647)
- Refurbishing design of Profile page (#214) (#256) (61a59d3)
- refurbishing gene details page (#229) (#230) (40daa26)
- refurbishing sequence variant details page (#244) (#255) (8f67c86)
- refurbishing SV details page (#236) (#239) (0d8dd34)
- restrict upgrade/downgrade of AMCG seqvar criteria (#291) (#321) (fabc262)
- updating profile to comply with OrcID requirements (#225) (#226) (23053f3)
- adjusting front-end to latest annonars changes (#224) (#228) (ce8ab52)
- Drop PP5 and BP6 criteria (#289) (#319) (a328f3a)
- fix blipping seqvar ACMG card (#266) (#269) (aa186c3)
- make clinvar impact table more robust, ignore labels (#234) (d3df9d7)
- make gray backround also work with dark theme (#276) (#282) (2b161f7)
- make querying for HGNC ID go to the gene (#327) (#333) (e73cf71)
- Make seqvar ACMG criterias upper case (#288) (#317) (0bfd3c0)
- make UI consistent on homepage (#215) (#277) (f81a48f)
- message when SpliceAI prediction unavailable (#268) (c2516e0)
- OMIM id extraction for link-out (#260) (#267) (f394b00)
- Present hpo terms on seqvar page (#286) (#298) (a61b57e)
- properly handle anonymous sessions in clinvarsub card (#328) (#335) (a61f864)
- properly handler errors / empty results from InterVar (#322) (#336) (6782a4f)
- properly urlencode arguments to dotty API call (#323) (#325) (699c654)
- Support for low-res displays (#285) (#295) (bdf7583)
- using text-no-wrap on ClinvarImpact table (#233) (e7cbaa7)
- vega plot background colors in dark mode (#284) (#337) (cb0cac1)
- Documentation of tutorial (#305) (3bc8312)
- filling the application's manual (#309) (#315) (c21e888)
- initial version of quickstart tutorial (#274) (#275) (51c6d4f)
0.2.0 (2023-11-15)
- Allow user to store case information with their account (#94, #179) (#178) (3301d74)
- Allow users to bookmark variants and genes (#95) (#173) (162ae13)
- Case specific data functionality (#93) (#175) (247d9b1)
- implement user email verification workflow (#177) (#184) (27c7d98)
- Integration of Matomo (#43) (#180) (0bf5869)
- Switch to vuetify cards for ui (#165) (#171) (a7e2853)
- towards complete integration of OrcID setup (#96) (#176) (3bef5e9)
- Update Info in About (#209) (#210) (0ff3d21)
- Allow dynamically load components (#181) (#192) (15c6007)
- Close db connection on startup (#205) (#211) (e8ed6be)
- Close db connection on startup (#205) (#212) (1c2b913)
- Docker build (#191) (2d8a218)
- Docs are rendered properly (#201) (#202) (2119aa6)
- Documentation of APIs (#201) (#206) (fe56f4a)
- Fix documentation in production (#201) (#207) (6973d0e)
- Jinja2 in PIpfile (#204) (e97a151)
- Matomo records (#187) (69ca50c)
- Path in docs (#208) (c12088c)
- Proper matomo url (#183) (#186) (9de2ffd)
- Rebuild docker container (#198) (6003f45)
- vue-matomo module declaration (#182) (21f292f)
- Add documentation for caseinfo and utils (#199) (#200) (187cba8)
- collect information for seqvar assessment in manual (#188) (#189) (4db354a)
- document database and rule sets for ACMG prediction (#190) (#193) (cae06de)
- explaining implementation of ACMG 2020 CNV assessment (#195) (#196) (a8f2f21)
0.1.0 (2023-10-19)
- Acknowledgements in about view (#42) (#44) (abd439d)
- ACMG rating of sequence/small variants (#54) (#60) (83540c2)
- Adapt ACMG Rating for multiple sources of info (#65) (#66) (54a2d88)
- Add support for commas in numbers in search Queries (#147) (#157) (d241329)
- Add tool for ACMG assessment of CNVs (#59) (#74) (195003b)
- adding support for login with OpenIDC (#50) (#87) (0ed6e19)
- adjust to annonars v0.24.0 clinvar output (#154) (#166) (08c2374)
- catch-all route in FastAPI allows for deep links in prod (#25) (#26) (454f211)
- Change title (#159) (dfbe284)
- Conflicting evidences in ACMG SV criteria (#120) (061e03f)
- Create Acmg Criteria component (#70) (#73) (7c463f1)
- create initial database setup for project (#49) (#80) (863c046)
- create pages for red tape (#156) (#158) (a604845)
- Default Footer implementation (#33) (#35) (ef6549a)
- Finish integration of genome browser (#102) (#104) (a2f8282)
- Gene-wide variation landscape (#67) (#105) (2ce7de2)
- Implement gene search functionality and gene information page (#11) (#14) (644a2d4)
- Implementation of reverse proxies for
varfish-docker-compose-ng
(#10) (#12) (c3884a4) - Implementation of search for general entries (#20) (#37) (eb7b907)
- Improve ACMG rating of sequence/small variants (#64) (#63) (507ad2c)
- integrate dotty to allow querying for HGVS variants (#101) (#110) (781f383)
- Integrate new GTEx and clinvar information as done for VarFish (#61) (#62) (d836edb)
- integration of meahri 0.8.0 (#56) (#103) (b2411a6)
- Link-outs in SV detail page (#143) (#155) (17171a7)
- new
SearchBar
with vuetify Toolbars (#17) (#34) (6043aec) - proper LS-RI-AAI and OrcID login buttons (#163) (#164) (3fa85f7)
- put the current version into docker image and display (#28) (#29) (586af7e)
- Retrieval of affected genes in SV from mehari (#56) (#107) (d16af74)
- setup initial support for local login (#48) (#82) (afead65)
- SV Details View (#55) (#75) (4681e30)
- Update ACMG criteria for CNVs (#76) (#114) (0b572f6)
- Add keydown entry to text-field in search bar (#144) (#148) (65dcbdc)
- Add linkout for genes in SV page (#152) (#153) (bc062d8)
- Add support for large displays (#113) (#128) (555fae4)
- Add type definitions (#68) (#71) (607af69)
- adjust default backend service ports for prod (#27) (655e549)
- Change redirection method in genes entrypoint (#161) (#162) (903aa5f)
- Consequences display (#116) (#129) (d4c5e3f)
- Correctly present CADD missing scores (#125) (#133) (3251722)
- database credential access in Docker build (#90) (2d8f3ca)
- Display 0 instead of Nan (#119) (#130) (80901c4)
- Display of clinvar variants in variation landscape (#118) (#127) (b3ab2b3)
- entrypoint.sh in Docker build (#88) (81bfd43)
- fixes to .python-version, docs, .gitignore (#8) (9cf42a4)
- fixing favicon in production (#31) (f1be9fd)
- genotype calls are removed from SV details page (#142, #150) (#151) (5123958)
- Input assembly arg for dotty (#141) (#145) (f349e39)
- Linkout to UCSC (#121) (#132) (7f9c1e4)
- login URL generation (#91) (044e5f3)
- make OAuth2 work with ORCID (#92) (c069ff5)
- menu links for details page and tests (#160) (ad59e9b)
- Non existing variants are not handled gracefully (#109) (#112) (22b2001)
- Present Clinvar information (#124) (#134) (11bfc24)
- properly setup vite build & backend server (#21) (#22) (5459db5)
- properly setup vite proxy for development (#85) (63ec6ac)
- Remove 1000 suffix in genome browser coordinates (#146) (#149) (a4de33c)
- Revel score for nonsense variant (#126) (#139) (d501d98)
- Search works only from second time (#23, #24) (#30) (4ca6249)
- Update link to variant validator (#122) (#131) (eb971cb)
- Update scores for lollipops clinvar plot (#137) (#138) (bc251d3)
- write git version to VERSION in CI (#32) (0649cfe)