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Updated PhyloToL Part 1: GF assignment (markdown)
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@ -102,7 +102,7 @@ To process transcriptomes, run:
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* --output = path to output folder
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* --output = path to output folder
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* --genetic_code = specified genetic code, name of .txt file with Genetic codes
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* --genetic_code = specified genetic code, name of .txt file with Genetic codes
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* -d = path to Databases folder
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* -d = path to Databases folder
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* />log.txt = if added to the end of the command, it will output a log file with progress, warning, or error messages
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* / >log.txt = if added to the end of the command, it will output a log file with progress, warning, or error messages
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* *For running with cross plate contamination removal, add `-x -n Conspecific.txt` to the line of code.
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* *For running with cross plate contamination removal, add `-x -n Conspecific.txt` to the line of code.
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### Processing genomes
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### Processing genomes
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