NAME

run_tipp_tool.py - helper tool to convert a classification file into a profile

DESCRIPTION

usage: run_tipp_tool.py [-h] [-g GENE] [-o OUTPUT] [-d OUTPUT_DIR] [-i INPUT] [-t THRESHOLD]

Performs various tools for TIPP.

-h, --help: show this help message and exit
-g GENE, --gene GENE: use GENE's reference package
-o OUTPUT, --output OUTPUT: output files with prefix OUTPUT. [default: output]
-d OUTPUT_DIR, --outdir OUTPUT_DIR: output to OUTPUT_DIR directory. full-path required. [default: .]
-i INPUT, --input INPUT: input file. full-path required. (_classification.txt file from running run_tipp.py)
-t THRESHOLD, --threshold THRESHOLD: Threshold for classification [default: 0.95]