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lines changed Original file line number Diff line number Diff line change @@ -4,7 +4,7 @@ description: A Bactopia Tool which uses GenoTyphi to genotype Salmonella Typhi f
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# Bactopia Tool - ` genotyphi `
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The ` genotyphi ` module uses [ GenoTyphi] ( https://github.com/typhoidgenomics/genotyphi ) to
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- call Typhi lineages, AMR determines and plasmid markers in Salmonella Typhi samples.
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+ call Typhi lineages, AMR determinants, and plasmid markers in Salmonella Typhi samples.
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Samples are first processed by [ Mykrobe] ( https://github.com/Mykrobe-tools/mykrobe ) using ` mykrobe predict `
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with ` typhi ` specified as the species. Then the Mykrobe results are then processed by the
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[ parse_typhi_mykrobe.py] ( https://github.com/typhoidgenomics/genotyphi/blob/main/typhimykrobe/parse_typhi_mykrobe.py )
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