All functions
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Gm
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Simulated genotype matrix as class SnpMatrix |
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MPP.PP.groups.fn()
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Summarise, for a set of diseases, posterior probabilities and marginal posterior probabilities by SNP groups |
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MPP.fn()
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Find marginal PP of inclusion for SNPs (MPPi) in marginal models at each kappa value |
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PP.plot.fn()
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Plot a matrix of probabilities, where rows are kappa values and columns are SNPs (MPP matrix) or models (PP matrix) |
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PPmarginal.multiple.fast.fn()
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Approximate (fast) marginal PP for models of a set of diseases, sharing information between the diseases |
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PPmarginal.multiple.fn()
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Marginal PP for models of a set of diseases, sharing information between the diseases |
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SM2
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A list of GUESSFM output for an instance of simulated data |
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addnull()
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addnull |
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calckappa()
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calckappa |
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calcpp()
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calcpp |
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check.fn()
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internal function for MPP.fn |
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kappaOpt()
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Kappa selection |
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logdiff()
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logdiff |
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logsum()
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logsum |
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make.snp.groups.fn()
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SNP groups that have marginal PP of inclusion (MPPi) above a threshold for some disease |
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marginalone()
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Marginal PP for models sharing information between diseases |
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marginalpp()
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Marginal PP for models sharing information between diseases |
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marginalpp.models()
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Marginal PP for models sharing information between diseases |
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marginalpp.old()
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Marginal PP for models sharing information between diseases |
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p.fn()
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Prior probability (in log units) for single trait models |
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pp.filter.fn()
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Filter probability matrix output by threshold |
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sep.fn()
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internal function for MPP.fn |
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snpGroups
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A list of 10 SNP groups in the IL2RA gene. |