Capice

What's Changed
* feat: Bind flag pipe through to apptainer by SietsmaRJ in https://github.com/molgenis/capice/pull/172
* Remove Gnomad_HN and drop GRCh37 from the docs by bartcharbon in https://github.com/molgenis/capice/pull/176
* Fix travis PyPi deploy by bartcharbon in https://github.com/molgenis/capice/pull/178


**Full Changelog**: https://github.com/molgenis/capice/compare/v5.1.1...v5.1.2

What's Changed
* Fix for multithreading not adhering to set value (also increases train speed). by svandenhoek in https://github.com/molgenis/capice/pull/167
* Fixed a bug that would force the predict output file to always be gzipped (explain) by svandenhoek in https://github.com/molgenis/capice/pull/168
* fix: Output overwrite without force by SietsmaRJ in https://github.com/molgenis/capice/pull/165
* Fix/removed legacy code + general code improvements by svandenhoek in https://github.com/molgenis/capice/pull/170
* includes xgboost updated to 1.7.4
* version bump by svandenhoek in https://github.com/molgenis/capice/pull/171


**Full Changelog**: https://github.com/molgenis/capice/compare/v5.1.0...v5.1.1

v5.1.1 models: Improved CAPICE models trained on CAPICE version 5.1.1 including the GnomAD Homozygosity counts feature. Validation can be found [here](https://github.com/molgenis/capice-resources/tree/main/validation/5.1.1/5.1.1-v1).

What's Changed
* Updated xgboost to 1.7.3 by svandenhoek in https://github.com/molgenis/capice/pull/157
* Feat/easybuild to apptainer + README/setupy.py adjustments by SietsmaRJ in https://github.com/molgenis/capice/pull/156
* chore: Re-add gnomAD_HN feature by SietsmaRJ in https://github.com/molgenis/capice/pull/162
* docs: Conversion script pointer by SietsmaRJ in https://github.com/molgenis/capice/pull/160
* fix: Rollback to 4.0.0 output column names by SietsmaRJ in https://github.com/molgenis/capice/pull/159
* chore: Update and equalize dependencies by SietsmaRJ in https://github.com/molgenis/capice/pull/163
* chore: CAPICE 5.1.0 version bump by SietsmaRJ in https://github.com/molgenis/capice/pull/161


**Full Changelog**: https://github.com/molgenis/capice/compare/v5.0.0...v5.1.0

What's Changed
* README updates: Added info about Singularity image and added section with original sources data by svandenhoek in https://github.com/molgenis/capice/pull/142
* feat: Improved intron-exon splitting by SietsmaRJ in https://github.com/molgenis/capice/pull/143
* Revert "feat: Improved intron-exon splitting" by svandenhoek in https://github.com/molgenis/capice/pull/145
* feat: Move balancing script by SietsmaRJ in https://github.com/molgenis/capice/pull/146
* Feat/xgboost version bump by svandenhoek in https://github.com/molgenis/capice/pull/144
* fix/input digestion (error), minimal required python version & travis by svandenhoek in https://github.com/molgenis/capice/pull/147
* Feat/json models by svandenhoek in https://github.com/molgenis/capice/pull/151
* Fixed a bug that would force the predict output file to always be gzipped by svandenhoek in https://github.com/molgenis/capice/pull/154
* Fix/train feature json by SietsmaRJ in https://github.com/molgenis/capice/pull/153


**Full Changelog**: https://github.com/molgenis/capice/compare/v4.0.0...v5.0.0

For the models:
v1: Initial release of CAPICE 5.0.0.
v2: Updated model (trained at tag 5.1.0) including the GnomAD homozygous counts for improved performance.

What's Changed
* feat: No Imputing by SietsmaRJ in https://github.com/molgenis/capice/pull/130
* feat: Updated libraries by SietsmaRJ in https://github.com/molgenis/capice/pull/131
* Feat/simplified bcftools by SietsmaRJ in https://github.com/molgenis/capice/pull/135
* Uniform extra_require naming between repo's. by svandenhoek in https://github.com/molgenis/capice/pull/136
* Feat/new features + VEP update by svandenhoek in https://github.com/molgenis/capice/pull/137
* chore: Primary branch rename by SietsmaRJ in https://github.com/molgenis/capice/pull/140
* feat: Informative train info log by SietsmaRJ in https://github.com/molgenis/capice/pull/138
* feat: 4.0.0 Release by SietsmaRJ in https://github.com/molgenis/capice/pull/141


**Full Changelog**: https://github.com/molgenis/capice/compare/v3.3.0...v4.0.0

For the models:
v1: Initial release of CAPICE 4.0.0.
v2: Updated model with improved training process (no heterozygous variants in autosomal recessive genes)

What's Changed
* Feat/simplified bcftools by SietsmaRJ in https://github.com/molgenis/capice/pull/135
* Uniform extra_require naming between repo's. by svandenhoek in https://github.com/molgenis/capice/pull/136
* Feat/new features + VEP update by svandenhoek in https://github.com/molgenis/capice/pull/137


**Full Changelog**: https://github.com/molgenis/capice/compare/v4.0.0-rc2...v4.0.0-rc3