Commit 997ab2bb authored by Laura Denies's avatar Laura Denies
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parent dd2acbe7
......@@ -55,7 +55,8 @@ In "project" an unique name for your project need to be given, for example:
* project: Project_A_PathoFact
Lastly in the file called "Snakefile" the required workflow can be selected, which give the following options:
Pathofact as default will run the complete pipeline for the prediction of virulence factors, toxins and antimicrobial resistance genes.
If it is desired to run only part of the pipeline this can be identicated **within** the "Snakefile" by changing "w" to a different option:
* w = 'complete' (run complete pipeline, default setting)
* w = 'Tox' (run only workflow for Toxin prediction)
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