the Metagenomic test for Presence Or Absence of Pathways
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MetaPOAP_cl.py
MetaPOAP_csv.py
MetaPOAP_i.py
README.md
test.csv

README.md

MetaPOAP

the Metagenomic test for Presence Or Absence of Pathways MetaPOAP is a statistical tool for predicting the likelihood for the presence or absence of metabolic pathways in metagenome-assembled genomes given estimates of completeness and contamination. The background and implementation of MetaPOAP is described in a forthcoming Bioinformatics paper (preprint manuscript and SI). MetaPOAP is provided as three Python scripts. metapoap_i.py is interactive on the command line, metapoap_cl.py accepts command line arguments, and metapoap_csv.py works with input and output csv files (an example input is provided as test.csv); usage details are provided in the SI of the Bioinformatics paper linked above. If you use MetaPOAP, please cite: Ward, LM, PM Shih, and WW Fischer. MetaPOAP: Presence or Absence of Metabolic Pathways in Metagenome-Assembled Genomes. Bioinformatics, in press. DOI:10.1093/bioinformatics/bty510