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…atory-plots add fixes
- fix bug created by previous commit
- only if all methods available run the plot - split the plotting script into each individual method
- add parameters in nextflow config - add parameters in modules
…atory-plots Add first version of positive selection side plots + nextflow version to 24.04 Missing implementation of generating the different plots individually and not requiring all the information for generating single plots
Add option for custom gene groups in omega
- user can provide a custom BED file to compute depths - focusing the depths on a region restricts everything
- add a new parameter to nextflow config - update the module script accordingly
Add option to restrict all analysis to custom BED file
- testing pending
- ensure "global" panels are value channels
Update the scripts to handle NAs in mutations
- update gene_groups as appropriate - add parameters to nextflow.config - add parameters to nextflow_schema
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