Fix FASTQC filename collision#534
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tgelafr-pfzr wants to merge 52 commits intonf-core:masterfrom
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…0.0.0 Update to cellranger v10.0.0
…, update tests accordingly
Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
Co-authored-by: Nico Trummer <nictru32@gmail.com>
…ulti-index-mm Fix bug with probeset and index mismatch when using cellranger multi with a probeset and without a pre-built index
…ode-csv-bom handle BOM files, update test to include BOM
…nger multi barcodes and input samplesheet
…instructions to be more explicit about cellranger multi barcode sheet requirements
…rcodes-early-validation nf-core#512: Validate cellranger multi barcode sheet early
…ne tests still pass" This reverts commit 3af7870.
Improve modules.config structure
…lex-bug 515: Fix bug processing singleplex flex data
…lrangermulti Fix nf-core#522: Protocol processing for cellrangermulti
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Warning Newer version of the nf-core template is available. Your pipeline is using an old version of the nf-core template: 3.5.1. For more documentation on how to update your pipeline, please see the nf-core documentation and Synchronisation documentation. |
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Closes #533, pulling in changes from nf-core/modules#10924
PR checklist
nf-core pipelines lint).nextflow run . -profile test,docker --outdir <OUTDIR>).nextflow run . -profile debug,test,docker --outdir <OUTDIR>).CHANGELOG.mdis updated.