Open main menu

SEQwiki β

Changes

MetaSim

101 bytes added, 09:39, 7 September 2011
no edit summary
{{Bioinformatics application
|sw summary=Our The 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.
|bio domain=Metagenomics, Genomics
|bio method=Simulation, Assembly, Mapping
|bio tech=454, Illumina, Sanger,
|language=Java
|licence=Free for academic use,
}}
The 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.
{{Links}}
{{References}}
{{Link box}}
728
edits