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Update CountTaxonOccurence.py

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Adri K. Grow 2024-08-07 18:16:01 -04:00 committed by GitHub
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Utilities/for_trees/CountTaxonOccurence.py
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@ -7,8 +7,8 @@ Inputs: Directory of postguidance files
Optional: use the --minor flag and include a file named focal_minors.txt in same folder (do not put file name in command line). This file should be csv of targets (Am_tu, Sr_rh, Sr_ci)
Optional: OR use the --major flag and include a file named focal_majors.txt in same folder (do not put file name in command line). This file should be csv of targets (Am, Sr)
Outputs: CSV file tallying all the counts of taxa in each OG file plus minor and major clade tallies
Command line: python3 CountTaxonOccurence_faster_minor.py --input <dir of postguidance files> --minor OR
Command line: python3 CountTaxonOccurence_faster_minor.py --input <dir of postguidance files> --major
Command line: python3 CountTaxonOccurence.py --input <dir of postguidance files> --minor OR
Command line: python3 CountTaxonOccurence.py --input <dir of postguidance files> --major
'''