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Reorganize subworkflows input and fix mutrate bug#147

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FerriolCalvet merged 8 commits intodevfrom
dev-reorganize
Oct 16, 2024
Merged

Reorganize subworkflows input and fix mutrate bug#147
FerriolCalvet merged 8 commits intodevfrom
dev-reorganize

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  • Reorganize depths creation steps to happen only once
  • Allow the storage of depths files by adding the parameter store_depths = true
  • Rename mutation subset processes so that they can be used to store the mutations used as input for a given method.

- depth filter happens once per each panel region
- subsetted depths are passed into subsequent steps
- add option to turn on or off storage of depths
- remove underscore to allow process-specific storage
- store synonymous sample panels to common folder
@FerriolCalvet FerriolCalvet linked an issue Oct 10, 2024 that may be closed by this pull request
@FerriolCalvet FerriolCalvet linked an issue Oct 15, 2024 that may be closed by this pull request
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@FerriolCalvet FerriolCalvet changed the title Reorganize subworkflows input Reorganize subworkflows input and fix mutrate bug Oct 16, 2024
@FerriolCalvet FerriolCalvet merged commit 26b6596 into dev Oct 16, 2024
@FerriolCalvet FerriolCalvet deleted the dev-reorganize branch October 16, 2024 23:32
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Fix mutation rate script Reorganize positive selection / subsetting of mutation steps

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