Difference between revisions of "MetaSim"
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Revision as of 19:52, 17 September 2009
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Application data |
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| Biological application domain(s) | Metagenomics, Genomics |
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| Principal bioinformatics method(s) | Simulation, Assembly, Mapping |
| Maintained? | Maybe |
| Programming language(s) | Java |
| Licence | Free to academics |
Summary: Our software can be used to generate collections of synthetic reads that reflect the diverse taxonomical composition of typical metagenome data sets. Based on a database of given genomes, the program allows the user to design a metagenome by specifying the number of genomes present at different levels of the NCBI taxonomy, and then to collect reads from the metagenome using a simulation of a number of different sequencing technologies. A population sampler optionally produces evolved sequences based on source genomes and a given evolutionary tree. The resulting data sets can be used as standardized test scenarios for planning sequencing projects or for benchmarking assembler and metagenomic software.
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