v1.0.0

What's Changed

• Add alternative key servers for R by @arine in #1
• Handle the cases that HGMD rs and gnomAD AF is single float num by @arine in #7
• added filtering checkpoint by @ChaozhongLiu in #8
• Hpo obo by @sasidharPasupuleti in #10
• bug fixed when no recessive variant pair found by @ChaozhongLiu in #9
• switching from globus to s3 by @sasidharPasupuleti in #12
• Update output.rst by @hyunhwan-bcm in #13
• rebase commit fiillna_bug by @ZaahidShaik in #14
• edit dockerfile for automatical bedtools/bcftools installation. by @hyunhwan-bcm in #26
• remove bcftools/bedtools installation in installation.rst by @hyunhwan-bcm in #27
• fix Dockerfile for R installation. by @hyunhwan-bcm in #28
• Feature(ci): Add GitHub Actions for automated testing by @arine in #29
• Updated AI-MARVEL manuscript link in README and Docs by @ChaozhongLiu in #30
• Fixed imputation error from a wrong commit by @ChaozhongLiu in #40
• Nextflow conversion by @hyunhwan-bcm in #18
• update bcf_tools version from v1.9 to v1.20. by @ZaahidShaik in #43
• Refactor Feateng1 to see the feature dependency easier. by @jylee-bcm in #46
• Add Bed Filter Parameter and Close #48 by @jylee-bcm in #50
• Add --help flag for displaying usage information to users. by @ZaahidShaik in #51
• Add GVCF to VCF logic. Close #56 by @jylee-bcm in #58
• Add validation for required inputs types and display error_messages by @ZaahidShaik in #60
• ci: build Docker image and push to Docker Hub by @arine in #45
• Optimize HGMD information search in Feature Engineering Part 1 by @jylee-bcm in #61
• job separation by chromosome by @hyunhwan-bcm in #57
• Revert "job separation by chromosome" by @hyunhwan-bcm in #62
• Clean main.nf by @jylee-bcm in #65
• job separation by chromosome by @hyunhwan-bcm in #63
• Add gene_only filter script by @SpicyChicken6 in #55
• fix phrank error by @hyunhwan-bcm in #69
• Rename and Regroup Processes More Meaningfully by @jylee-bcm in #68
• fix empty HPO error. by @hyunhwan-bcm in #72
• Manual update by @hyunhwan-bcm in #73
• Revert "Manual update" by @hyunhwan-bcm in #74
• Fix an issue with --help by @hyunhwan-bcm in #75
• doc: update the documentation link by @arine in #79
• Update README and Version Command by @jylee-bcm in #78
• Organize the use of out_dir by @jylee-bcm in #76
• doc: update S3 URI at installation.rst by @arine in #82
• merge nextflow_conversion branch to main by @hyunhwan-bcm in #83

New Contributors

• @arine made their first contribution in #1
• @ChaozhongLiu made their first contribution in #8
• @sasidharPasupuleti made their first contribution in #10
• @hyunhwan-bcm made their first contribution in #13
• @ZaahidShaik made their first contribution in #14
• @jylee-bcm made their first contribution in #46

Full Changelog: https://github.com/LiuzLab/AI_MARRVEL/commits/v1.0.0