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Pull requests: scverse/rustar-aligner
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feat(io): bound coordinate-sort memory with an external merge
#214
opened Aug 6, 2026 by
alejandrogzi
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chore(deps): bump noodles 0.113 -> 0.115, noodles-bgzf 0.49 -> 0.51
#211
opened Aug 5, 2026 by
BenjaminDEMAILLE
Contributor
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solo: count intronic reads by default on 10x (closes 30 of the 32 points vs CellRanger, stacked on #182)
#184
opened Jul 31, 2026 by
BenjaminDEMAILLE
Contributor
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solo: --soloCellFilter OrdMag, CellRanger's cell call (first item of #181, stacked on #180)
#182
opened Jul 31, 2026 by
BenjaminDEMAILLE
Contributor
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solo: metrics_summary.csv under the CellRanger layout (stacked on #178)
#179
opened Jul 31, 2026 by
BenjaminDEMAILLE
Contributor
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solo: --soloOutLayout CellRanger, CellRanger's output shape (changes output paths on 10x, stacked on #176)
#178
opened Jul 31, 2026 by
BenjaminDEMAILLE
Contributor
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feat(solo): CellRanger behaviour by default on 10x geometry (changes default output, stacked on #175)
#176
opened Jul 31, 2026 by
BenjaminDEMAILLE
Contributor
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feat(solo): --soloOutRawBarcodes Observed — a CellRanger-shaped raw matrix (stacked on #173)
#174
opened Jul 31, 2026 by
BenjaminDEMAILLE
Contributor
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fix(test): the unmapped-reason test re-implemented the logic it was testing
#169
opened Jul 30, 2026 by
BenjaminDEMAILLE
Contributor
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solo: cbMinP posterior threshold, oneExact guard, adapter-anchored geometry (replaces #150)
#165
opened Jul 30, 2026 by
BenjaminDEMAILLE
Contributor
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genome: --genomeType SuperTranscriptome
#161
opened Jul 29, 2026 by
BenjaminDEMAILLE
Contributor
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genome: --genomeTransformOutput SAM reports original coordinates
#160
opened Jul 29, 2026 by
BenjaminDEMAILLE
Contributor
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bam: --outBAMsortingBinsN spills the coordinate sort to disk bins
#151
opened Jul 28, 2026 by
BenjaminDEMAILLE
Contributor
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chimeric: --chimMultimapNmax enumeration, and --chimFilter banGenomicN
#149
opened Jul 28, 2026 by
BenjaminDEMAILLE
Contributor
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aligner core: annotated-junction stitching, alignEndsType, in-recursion length penalty
#146
opened Jul 28, 2026 by
BenjaminDEMAILLE
Contributor
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feat: STARlong binary + long-read window-coverage filter
#116
opened Jul 24, 2026 by
BenjaminDEMAILLE
Contributor
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genomeGenerate: libsais suffix-array builder, selected by --limitGenomeGenerateRAM
#109
opened Jul 23, 2026 by
BenjaminDEMAILLE
Contributor
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