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BMCBI
2007

Strainer: software for analysis of population variation in community genomic datasets

11 years 1 months ago
Strainer: software for analysis of population variation in community genomic datasets
Background: Metagenomic analyses of microbial communities that are comprehensive enough to provide multiple samples of most loci in the genomes of the dominant organism types will also reveal patterns of genetic variation within natural populations. New bioinformatic tools will enable visualization and comprehensive analysis of this sequence variation and inference of recent evolutionary and ecological processes. Results: We have developed a software package for analysis and visualization of genetic variation in populations and reconstruction of strain variants from otherwise co-assembled sequences. Sequencing reads can be clustered by matching patterns of single nucleotide polymorphisms to generate predicted gene and protein variant sequences, identify conserved intergenic regulatory sequences, and determine the quantity and distribution of recombination events. Conclusion: The Strainer software, a first generation metagenomic bioinformatics tool, facilitates comprehension and analys...
John M. Eppley, Gene W. Tyson, Wayne M. Getz, Jill
Added 08 Dec 2010
Updated 08 Dec 2010
Type Journal
Year 2007
Where BMCBI
Authors John M. Eppley, Gene W. Tyson, Wayne M. Getz, Jillian F. Banfield
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