kemal
180b6f160a
SIMURGARRAY_FUNCTIONAL_SPEC.md defines externally visible behaviour: CLI, inputs, genotyping outputs, QC and report, cytogenetics CNV/LOH, targeted PGx copy number, star alleles, methylation control QC, edge-case catalogue, performance targets, open questions and a traceability table.
13 lines
584 B
Markdown
13 lines
584 B
Markdown
# SimurgArray
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Personal research toolkit for Illumina Infinium genotyping BeadChip data
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(IDAT → normalization → genotype calling → BAF/LRR → QC → VCF/PLINK; later CN/LOH, PGx, cluster training).
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Start with **SIMURGARRAY_MASTER_PLAN.md** (architecture, algorithms, roadmap) and
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**SIMURGARRAY_FUNCTIONAL_SPEC.md** (416 itemised requirements: CLI, inputs, outputs, QC, CN, PGx, methylation, edge cases).
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```bash
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bash scripts/bootstrap_refs.sh # clone reference open-source repos into refs/
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bash scripts/fetch_data.sh p0 # download small test datasets into data/
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```
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