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SimRare specifications

Information


Unique identifier OMICS_00257
Name SimRare
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, Python
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Publication for SimRare

SimRare citations

 (3)
library_books

cophesim: a comprehensive phenotype simulator for testing novel association methods

2017
F1000Res
PMCID: 5605948
PMID: 28979766
DOI: 10.5256/f1000research.12938.r24718

[…] rtificial data simulated with specific assumptions.The best existing phenotype simulators, such as: GENOME , Plink , phenosim , CoaSim , Fregene , ForSim , QuantiNemo , GCTA , HapGen , SeqSimla , and SimRare offer qualitative and dichotomous simulated phenotype. But the known phenotype simulation software tools have some limitations, which may prevent customers from using them: (i) the majority, […]

library_books

Cohen’s h for detection of disease association with rare genetic variants

2014
BMC Genomics
PMCID: 4198687
PMID: 25294186
DOI: 10.1186/1471-2164-15-875

[…] other methods including Combined Multivariate and Collapsing Method (CMC) [], Weighted Sum Statistic (WSS) [] and Variable Threshold (VT) [], we used simulated rare variants datasets generated by the SimRare program ([], http://code.google.com/p/simrare/). SimRare uses the forward-time simulation program to generate sequence data. Evolution parameters used were: (1) an additive multi-locus model w […]

library_books

BioBin: a bioinformatics tool for automating the binning of rare variants using publicly available biological knowledge

2013
BMC Med Genomics
PMCID: 3654874
PMID: 23819467
DOI: 10.1186/1755-8794-6-S2-S6

[…] Using SimRare, a 5kb genomic region was simulated with an average of 968 rare variants as described in the methods section for four sample sizes (N = 2000, 1000, 500, 250). Case/control status was evenly an […]

Citations

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SimRare institution(s)
Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA

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