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Usage
Georgios Koutsovoulos edited this page Oct 3, 2022
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- Prepare input files
- AvP prepare - Extract the candidates, prepare the groups, and perform MSA
- AvP detect - Perform tree inference and detect HGT candidates
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Downstream analyses
- AvP classify - Classify genes in specific taxonomic categories
- AvP evaluate - Evaluate alternative topology
- hgt local score - Calculate a score to identify possible contaminants