FANTOM: Functional and taxonomic analysis of metagenomes
Journal article, 2013

Background Interpretation of quantitative metagenomics data is important for our understanding of ecosystem functioning and assessing differences between various environmental samples. There is a need for an easy to use tool to explore the often complex metagenomics data in taxonomic and functional context. Results Here we introduce FANTOM, a tool that allows for exploratory and comparative analysis of metagenomics abundance data integrated with metadata information and biological databases. Importantly, FANTOM can make use of any hierarchical database and it comes supplied with NCBI taxonomic hierarchies as well as KEGG Orthology, COG, PFAM and TIGRFAM databases. Conclusions The software is implemented in Python, is platform independent, and is available at http://www.sysbio.se/Fantom.

Graphical User Interface (GUI)

Multivariate analysis

Statistical analysis

Metagenomics

Visualization

Author

Kemal Sanli

Chalmers, Chemical and Biological Engineering

University of Gothenburg

Fredrik Karlsson

Chalmers, Chemical and Biological Engineering, Life Sciences, System Biology

Intawat Nookaew

Chalmers, Chemical and Biological Engineering, Life Sciences, System Biology

Jens B Nielsen

Chalmers, Chemical and Biological Engineering, Life Sciences, System Biology

BMC Bioinformatics

1471-2105 (ISSN)

Vol. 14 1 artikel nr 38- 38

Areas of Advance

Information and Communication Technology

Life Science Engineering

Infrastructure

C3SE (Chalmers Centre for Computational Science and Engineering)

Subject Categories

Chemical Sciences

DOI

10.1186/1471-2105-14-38

PubMed

23375020

More information

Created

10/7/2017