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Commit 2af53d5b authored by Valentina Galata's avatar Valentina Galata
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config: updated aquifer

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config/aquifer/config.yaml
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......@@ -2,8 +2,7 @@
# STEPS
# Steps to be done
# steps: ["preprocessing", "assembly", "mapping", "annotation", "analysis", "taxonomy"]
steps: ["preprocessing", "assembly"]
steps: ["preprocessing", "assembly", "mapping", "annotation", "analysis", "taxonomy"]
steps_annotation: ["rgi", "plasflow", "minced", "barrnap"] # prodigal is run in any case, no kegg
steps_analysis: ["quast", "mash", "mashmap", "fastani", "cdhit", "diamond"] # no mummer, cov
steps_taxonomy: ["kraken2", "kaiju"]
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