dev to staging #1169
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dev to staging #1169
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Added option to incorporate BB tag in BAM and use it in SnapATAC2 software.
* update overview docs - update pipeline version numbers in Multiome and Optimus Overview docs * update multi-SS2 overview doc * Update smart-seq2.methods.md * update multi-SS2 methods doc * Update doc_style.md * add paired-tag overview doc * Update website/docs/Pipelines/PairedTag_Pipeline/README.md Co-authored-by: ekiernan <[email protected]> * Apply suggestions from LK doc review Co-authored-by: ekiernan <[email protected]> --------- Co-authored-by: ekiernan <[email protected]>
Jw fix jg plumbing test
* integrate multiple soloFeatures * updating counting_mode definition * logic * count exons is true * count exons is true * fix the logic * count exons false * count exons false * echos * echos * echos * rearrange logic * rearrange * testing * testing * testing * count exons true * switch counting mode order * try running in scrna * clean up * snrna countexons is true * snrna countexons is true * snrna countexons is false * snrna countexons is true * snrna countexons is false * cleaning up * changelogs * changelogs * change cpu_platform to Intel Cascade Lake for sci test input * change cpu_platform to Intel Cascade Lake for sci test input * Update pipelines/skylab/smartseq2_single_nucleus_multisample/MultiSampleSmartSeq2SingleNucleus.changelog.md Co-authored-by: ekiernan <[email protected]> * Update pipelines/skylab/multiome/Multiome.changelog.md Co-authored-by: ekiernan <[email protected]> * Update pipelines/skylab/optimus/Optimus.changelog.md Co-authored-by: ekiernan <[email protected]> * Update pipelines/skylab/paired_tag/PairedTag.changelog.md Co-authored-by: ekiernan <[email protected]> * Update pipelines/skylab/slideseq/SlideSeq.changelog.md Co-authored-by: ekiernan <[email protected]> --------- Co-authored-by: Juan Pablo Ramos Barroso <[email protected]> Co-authored-by: ekiernan <[email protected]>
* add summary task * change cpu_platform to Intel Cascade Lake for sci test input * change cpu_platform to Intel Cascade Lake for sci test input * change cpu_platform to Intel Cascade Lake for sci test input * Update VerifyTasks.wdl * Update VerifyTasks.wdl
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DO NOT SQUASH MERGE!!! |
jessicaway
approved these changes
Jan 9, 2024
kayleemathews
approved these changes
Jan 9, 2024
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