MetaPath - Comparative Analysis of Metabolic Pathways in Metagenomics
Introduction

One major and chalenging goal in metagenomics is to identify specific functional adaptations (signatures) of microbial communities to their habitats. Here we describe a powerful analytical method - MetaPath that can identify differentially abundant metabolic pathways in metagenomic datasets, relying on a combination of metagenomic sequence data and prior metabolic pathway knowledge (from KEGG).



Download

The program is implemented in Perl. Download metaPathV0.83.tar.gz



Tutorial

In progress ...



Publication

Liu B, Pop M: Identifying Differentially Abundant Metabolic Pathways in Metagenomic Datasets. Lect Notes Comput Sci 2010, 6053: 101-112



Related Links

- MetaPhyler: Estimate Bacterial Composition from Metagenomic Sequences
- Metastats: Statistical Methods for Metagenomics
- ARDB: Antibiotic Resistance Genes Database
- Tools developed in Dr. Mihai Pop's lab
- Tools developed in CBCB



Contact

Bo Liu (Graduate Student)
(Email: boliu [AT] umiacs.umd.edu)

Mihai Pop (PI)
(Email: mpop [AT] umiacs.umd.edu)

Center for Bioinformatics and Computational Biology
3115 Biomolecular Sciences Building #296
University of Maryland
College Park, MD 20742

Last Update: Jan 5, 2011