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Submit subworkflows to nf-core/modules and (re-) import them here #60

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matthdsm opened this issue Oct 6, 2022 · 2 comments
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enhancement Improvement for existing functionality

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@matthdsm
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matthdsm commented Oct 6, 2022

Description of feature

Future plans for demultiplex workflow:

Attempt to convert into atomic subworkflows:

  1. wrap different demux strategies into subworkflows:
  • demultiplex_illumina (bcl-convert, bcl2fastq)
  • demultiplex_element (bases2fastq)
  • demultiplex_singlecell (cellranger, contributed by @apeltzer)
  1. wrap subworkflows into self contained subworkflow and submit to modules
  2. Wrap subworkflow into stand-alone demutliplex workflow with qc steps etc, baked in.

Open for comment!

cfr https://nfcore.slack.com/archives/CL88J906S/p1665042215379769

@matthdsm matthdsm added the enhancement Improvement for existing functionality label Oct 6, 2022
@edmundmiller
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nf-core/modules#2198

@edmundmiller edmundmiller added this to the v1.1.0 milestone Oct 10, 2022
@edmundmiller edmundmiller removed this from the v1.1.0 milestone Oct 20, 2022
@grst
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grst commented Aug 5, 2024

By now all demultiplxing routes are separate (local) subworkflows, but they are not submitted to nf-core/modules yet.

@apeltzer apeltzer changed the title RFC: Convert to stand-alone subworkflow(s) Submit subworkflows to nf-core/modules and (re-) import them here Aug 14, 2024
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