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MetaSim | A sequencing simulator for genomics and metagenomics

A package to facilitate the development and improvement of metagenomic tools and the planning of metagenomic projects. MetaSim 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.

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MetaSim forum

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MetaSim classification

MetaSim specifications

Unique identifier:
OMICS_01509
Interface:
Graphical user interface
Input data:
Known genome sequences
Output data:
A collection of reads sequences.
Biological technology:
Illumina, Roche
Programming languages:
Java
Version:
0.9.5
Maintained:
Yes
Software type:
Package/Module
Restrictions to use:
None
Input format:
FASTA
Output format:
MULTIFASTA (optionally compressed)
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Medium
Stability:
Stable

MetaSim distribution

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MetaSim support

Documentation

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Publications

Institution(s)

ZBIT- Center for Bioinformatics Tübingen, University of Tübingen, Tubingen, Germany; Boehringer Ingelheim Pharma GmbH & Co KG, Biberach, Germany

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