Add standalone installer, example dataset, documentation, and DNAnexus installation #57
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adrianodemarino merged 1 commit intomasterfrom Mar 25, 2026
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Mar 11, 2026
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- Add install.sh: standalone installer for Linux and macOS (builds htslib, bcftools, pbwt, xSqueezeIt, Python venv)
- Add example/ directory with chr22 test dataset (100 ref, 2 target samples)
- Add docs/SRP_FORMAT.md: full specification of the .srp file format
- Add CITATION.cff for GitHub citation support
- Add architecture diagram to README
- Rewrite DNAnexus RAP app to run natively (no Docker image)
- Update README
- Update .gitignore for install artifacts and paper directory
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…s app - Add install.sh: standalone installer for Linux and macOS (builds htslib, bcftools, pbwt, xSqueezeIt, Python venv) - Add example/ directory with chr22 test dataset (100 ref, 2 target samples) packed as a single zip to reduce repo size - Add docs/SRP_FORMAT.md: full specification of the .srp file format - Add CITATION.cff for GitHub citation support - Add architecture diagram to README - Add per-variant dosage R-squared (DR2) quality score to VCF output - Rewrite DNAnexus RAP app to run natively (no Docker image) - Python 3.11 from deadsnakes PPA, xSqueezeIt compiled on-demand - Add Makefile, detailed Readme.md with UKB RAP batch examples - All optional parameters (est_ne, chunk_size, no_core_reduction) - Ubuntu 22.04 with proper execDepends - Update README: Quick Start, Docker/Singularity build instructions, Documentation section linking example/ and docs/SRP_FORMAT.md - Update .gitignore for install artifacts and paper directory
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sandra-selfdecode
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Mar 24, 2026
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