feat: add `--quantMode TranscriptomeSAM` output#7

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Commits on Apr 17, 2026

feat: add --runRNGseed and seeded primary tie-break

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Add --outSAMattrRGline flag and emit @RG header + RG:Z tags

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chore(simplify): use SliceRandom::shuffle for tied-prefix shuffle

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chore(simplify): tighten tie-shuffle comments

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chore(simplify): use std::hash::DefaultHasher directly

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chore(simplify): replace where-clause with impl Fn on shuffle_tied_prefix

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chore(simplify): drop dead rg_ids() call and redundant attrs gate

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chore(simplify): introduce primary_rg_id helper for writer callsites

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chore(simplify): rewrite parsed_rg_lines with Vec::split

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chore: remove dead SamWriter::write_unmapped

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chore: apply cargo fmt

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chore: apply cargo fmt

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Commits on Apr 21, 2026

Commits on Apr 22, 2026