Implement metagenomic mode - #14
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Implement metagenomic mode: - Add subworkflow for MAG assembly using MEGAHIT, with preliminary support for selecting metaSPAdes - Add the --meta parameter to enable Bakta's metagenomic mode for CDS prediction Refactor channel dataflow logic: - Add sample_id parameter to all sample-level processes for robustness - Remove duplicate channels and obsolete workarounds from the main workflow - Make the sorf_extra process accept any number of feature pickles - Switch to more suitable channel operators where appropriate (e.g. replace multiple map operations with a single multiMap)
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Implement metagenomic mode:
MEGAHIT, with preliminary support for selectingmetaSPAdes--metaparameter to enable Bakta's metagenomic mode for CDS predictionRefactor channel dataflow logic:
val(sample_id)parameter to all sample-level processes for robustnesssorf_extraprocess accept any number of feature pickles