diff --git a/Utilities/README.md b/Utilities/README.md index e452f65..356eb5c 100644 --- a/Utilities/README.md +++ b/Utilities/README.md @@ -68,6 +68,24 @@ To run: **Output** csv file of length, GC, coverage of each transcript, and multiple R plots, faceted by taxon and a csv file of data. It plots GC by length, and distributions of coverage, length and GC content across the whole transcript +## For Trees dir: +### count_tips.py + +Written Auden Cote-L'Heureux, updated by Elinor (esterner27@gmail.com) to count occurrences of taxa in each OG in a batch of post guidance files. + +**Purpose** This script will iterate through a directory of postguidance files and tally the number of times each taxa is found in an alignment. + +**Input** + folder of post guidance files (if this is the case, put `-i` or --input in the command line) + +**Usage** + +To run: +>`python count_tips.py --input ` + +**Output** csv file of each taxa by each OG file, and tallies of the number of times each taxa is found in each OG + + ### Katz lab >[About Katz Lab](https://www.science.smith.edu/katz-lab/)   \|