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Create 'differential' subworkflow #341

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Tracked by #385
pinin4fjords opened this issue Nov 7, 2024 · 2 comments · Fixed by nf-core/modules#7115
Open
Tracked by #385

Create 'differential' subworkflow #341

pinin4fjords opened this issue Nov 7, 2024 · 2 comments · Fixed by nf-core/modules#7115
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enhancement New feature or request

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pinin4fjords commented Nov 7, 2024 •
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Description of feature

There work ongoing at #288 to support a benchmarking/ multi-paramset use case. But I think more work needs to be done on the components.

A first easy win is a differential workflow to bundle DESeq2, Limma, and (in future) other differential methods into one subworkflow, along with post-filtering operations etc. Changing the currently released workflow logic to use that will provide an easier basis to work from.
@pinin4fjords pinin4fjords added the enhancement New feature or request label Nov 7, 2024
@pinin4fjords pinin4fjords self-assigned this Nov 7, 2024
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nf-core/modules component in progress at nf-core/modules#6951

@suzannejin suzannejin mentioned this issue Dec 10, 2024
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@suzannejin suzannejin linked a pull request Dec 10, 2024 that will close this issue
Facilitate iteration in differential subworkflow nf-core/modules#7115
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This was referenced Dec 10, 2024
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@github-project-automation github-project-automation bot moved this from In progress to Done in differentialabundance Dec 11, 2024
@pinin4fjords pinin4fjords reopened this Dec 11, 2024
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Re-opening this, I think it should be closed once the nf-core subworkflow is integrated

@suzannejin suzannejin moved this from Done to In progress in differentialabundance Dec 12, 2024
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enhancement New feature or request
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Facilitate iteration in differential subworkflow nf-core/modules
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