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Commits on Dec 5, 2025

• fix(anota2seq): add gene IDs and handle empty results (#9510)

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Commits on Dec 2, 2025

• Fix hisat2/align to support large genome indices (.ht2l) (#9493)

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Commits on Nov 29, 2025

• fix(ribodetector): Add version snapshot for topic-based version collection (#9478)

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• feat(fastq_qc_trim_filter_setstrandedness): Add Bowtie2 as alternative rRNA removal tool (#9474)

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Commits on Nov 27, 2025

• feat(fastq_qc_trim_filter_setstrandedness): Add RiboDetector as alternative rRNA removal tool (#9462)

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Commits on Nov 25, 2025

• feat(custom/tx2gene): Support multiple comma-separated gtf_extra_attributes (#9458)

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• Optimize bbsplit index handling to avoid large file copies (#9447)

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Commits on Nov 14, 2025

• Fix sample name mangling in tximport (#9407)

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Commits on Nov 13, 2025

• bbmap/bbsplit: Fix newline at end of file in meta.yml (#9399)

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Commits on Nov 11, 2025

• Fix BBSplit to prevent input file modification (#9356)

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Commits on Oct 21, 2025

• Add diann subworkflow and module (#9173)

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Commits on Sep 24, 2025

• Add diann/insilico_library_generation (#9108)

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Commits on Sep 15, 2025

• Update sentieon rsem (#9063)

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• Add alignment input possibility for rsem and tidy up tests (#9048)

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Commits on Jun 4, 2025

• pull in good conda build for sortmerna (#8598)

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Commits on Jun 3, 2025

• Bump multiqc (#8593)

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• Don't source multiqc from broken bioconda build (#8592)

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Commits on Jun 2, 2025

• Bump some modules relevant for rnaseq (#8560)

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Commits on May 22, 2025

• Don't use meta.id as contrast var (#8536)

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Commits on Apr 7, 2025

• Fix to rnaseq preprocessing linting fix (#8221)

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Commits on Apr 2, 2025

• Update shinyngs modules (#8194)

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Commits on Mar 26, 2025

• Add @pinin4fjords as codeowner on key contributions (#8135)

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Commits on Mar 21, 2025

• Fix rnaseq preprocessing: don't trim with bad linting (#7881)

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Commits on Feb 27, 2025

• Bump shinyngs modules (#7523)

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Commits on Jan 31, 2025

• Fix some subworkflow linting issues (#7408)

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Commits on Jan 30, 2025

• Update anota2seqrun.r for minor order fix (#7395)

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Commits on Jan 27, 2025

• bump multiqc 1.26 to 1.27 (#7364)

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Commits on Jan 20, 2025

• Allow transcriptome-only salmon indexing (#7327)

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Commits on Jan 10, 2025

• Bump star build for multithreading fix (#7286)

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Commits on Jan 6, 2025

• Fix unpaired outputs from trimgalore (#7269)

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Commits on Dec 20, 2024

• Refresh test snap for fastq_fastqc_umitools_fastp (#7256)

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Commits on Dec 18, 2024

• bump star build (#7194)

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Commits on Dec 17, 2024

• Fix fastp merge issue with subworkflow (#7237)

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Commits on Dec 13, 2024

• Update nf-test.config (#7214)

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Commits on Dec 12, 2024

• Fix subworkflow imports for bam_dedup_umi (#7209)

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