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fix(bam): per-reference CRAM fetch keeps only that reference's records
#178NicoDeVeaux opened Oct 23, 2026
fix(bam): unmapped sweep returns only records with no reference
#177NicoDeVeaux opened Oct 23, 2026
fix(counting): claim a chromosome name mismatch only when names don't overlap
#176NicoDeVeaux opened Oct 23, 2026
fix(flagstat): split counts by QC pass/fail and follow samtools' flagstat_loop
#175NicoDeVeaux opened Oct 23, 2026
feat(coverage): bigWig tracks from the alignment pass
#166BenjaminDEMAILLE opened Aug 29, 2026
fix(deps): bump crossbeam-epoch for RUSTSEC-2026-0204
#165BenjaminDEMAILLE opened Aug 29, 2026
feat(rna): Picard CollectRnaSeqMetrics
#164BenjaminDEMAILLE opened Aug 29, 2026
feat(rna): RSeQC geneBody_coverage and read_GC
#161BenjaminDEMAILLE opened Aug 29, 2026
feat(reads): raw FASTQ quality control
#160BenjaminDEMAILLE opened Aug 29, 2026
feat(protein): mass spectrometry QC from mzML
#159BenjaminDEMAILLE opened Aug 28, 2026
feat(protein): add the protein subcommand and its sequence mode
#158BenjaminDEMAILLE opened Aug 28, 2026
feat(dna): Qualimap bamqc, plus the DNA documentation pages
#156BenjaminDEMAILLE opened Aug 28, 2026
feat(dna): targeted mode, CollectHsMetrics and CollectGcBiasMetrics
#155BenjaminDEMAILLE opened Aug 28, 2026
feat(dna): Picard CollectWgsMetrics and CollectInsertSizeMetrics
#154BenjaminDEMAILLE opened Aug 28, 2026
feat: add the rustqc dna subcommand (depth of coverage, samtools, preseq)
#153BenjaminDEMAILLE opened Aug 28, 2026
refactor: extract assay-agnostic analyses into src/common/
#152BenjaminDEMAILLE opened Aug 28, 2026
ci: extend Dependabot to cargo, npm and docker
#146BenjaminDEMAILLE opened Aug 23, 2026
Migrate CLI parsing from clap to usage-rs
#145edmundmiller opened Aug 23, 2026Contributor
build(deps): update openssl-sys to 0.9.117 for OpenSSL 4 support
#144BenjaminDEMAILLE opened Aug 23, 2026
fix: make dupRadar and Qualimap outputs reproducible run-to-run
#142BenjaminDEMAILLE opened Aug 14, 2026
perf: parse GTF without per-line allocations (1.88x)
#140BenjaminDEMAILLE opened Aug 14, 2026
perf: buffer all output file writers (2.4x wall clock)
#139BenjaminDEMAILLE opened Aug 13, 2026
perf: switch flate2 to the zlib-rs backend (2.3x faster gzip)
#138BenjaminDEMAILLE opened Aug 13, 2026
perf: use mimalloc as the global allocator in the binary
#137BenjaminDEMAILLE opened Aug 13, 2026
feat: add align subcommand for single-pass DNA alignment QC
#136BenjaminDEMAILLE opened Aug 13, 2026

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fix(bam): per-reference CRAM fetch keeps only that reference's records

fix(bam): unmapped sweep returns only records with no reference

fix(counting): claim a chromosome name mismatch only when names don't overlap

fix(flagstat): split counts by QC pass/fail and follow samtools' flagstat_loop

feat(coverage): bigWig tracks from the alignment pass

fix(deps): bump crossbeam-epoch for RUSTSEC-2026-0204

feat(rna): Picard CollectRnaSeqMetrics

feat(rna): RSeQC geneBody_coverage and read_GC

feat(reads): raw FASTQ quality control

feat(protein): mass spectrometry QC from mzML

feat(protein): add the protein subcommand and its sequence mode

feat(dna): Qualimap bamqc, plus the DNA documentation pages

feat(dna): targeted mode, CollectHsMetrics and CollectGcBiasMetrics

feat(dna): Picard CollectWgsMetrics and CollectInsertSizeMetrics

feat: add the `rustqc dna` subcommand (depth of coverage, samtools, preseq)

refactor: extract assay-agnostic analyses into src/common/

ci: extend Dependabot to cargo, npm and docker

Migrate CLI parsing from clap to usage-rs

build(deps): update openssl-sys to 0.9.117 for OpenSSL 4 support

fix: make dupRadar and Qualimap outputs reproducible run-to-run

perf: parse GTF without per-line allocations (1.88x)

perf: buffer all output file writers (2.4x wall clock)

perf: switch flate2 to the zlib-rs backend (2.3x faster gzip)

perf: use mimalloc as the global allocator in the binary

feat: add align subcommand for single-pass DNA alignment QC

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