FANTOM: Functional and taxonomic analysis of metagenomes
Artikel i vetenskaplig tidskrift, 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

Författare

Kemal Sanli

Chalmers, Kemi- och bioteknik

Göteborgs universitet

Fredrik Karlsson

Kemi- och bioteknik, Livsvetenskaper, Systembiologi

Intawat Nookaew

Kemi- och bioteknik, Livsvetenskaper, Systembiologi

Jens B Nielsen

Kemi- och bioteknik, Livsvetenskaper, Systembiologi

BMC Bioinformatics

1471-2105 (ISSN)

Vol. 14 artikel nr 38- 38

Styrkeområden

Informations- och kommunikationsteknik

Livsvetenskaper och teknik

Infrastruktur

C3SE (Chalmers Centre for Computational Science and Engineering)

Ämneskategorier

Kemi

DOI

10.1186/1471-2105-14-38

PubMed

23375020