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Showing 4 open source projects for "snp"

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  • 1

    ntx

    Neutrality tests using the SNP site frequency spectrum

    Tests on "neutrality" are designed to detect systematic deviations from chance patterns in genetic data. This tool computes for a given SNP site frequency spectrum some standard test statistics like Tajima's D, Fay & Wu's H, etc. Additionally, the user may adapt the tests to specific demographies by specifying non-standard first and secondary moments. These can be obtained e.g. from simulations.
    Downloads: 1 This Week
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  • 2

    gametes

    Generate complex SNP models and heterogeneous datasets

    ...Version 2.0, adds the ability to generate heterogeneous datasets by applying multiple independent models to different subsets of the simulated data. Additionally we have added a custom model generation feature, so that users may directly specify and examine the properties of any 2 or 3 locus SNP model. Simple Mendelian models may also be generated with this feature.
    Downloads: 8 This Week
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  • 3
    SNP ratio test
    The SNP ratio test can assess significance of enrichment of significant associations in genome-wide association studies. Tests can be applied to pathways such as KEGG/GO, or user-defined pathways to test specific hypotheses. See link below for more.
    1 Review
    Downloads: 0 This Week
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  • 4
    DawgPack is an ultra-fast, Cloud-based tool that maps many high coverage genomes and performs analysis to find clues for pathogenesis. It will integrate CNV, SNP, RNA-Seq and ChIP-Seq analyses.
    Downloads: 0 This Week
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