MCPerm: A Monte Carlo permutation method for multiple test correlation

A Monte Carlo permutation method for multiple test correlation.

AuthorLanying Zhang and Yongshuai Jiang
Date of publication2013-06-17 16:58:49
MaintainerYongshuai Jiang <jiangyongshuai@gmail.com>
LicenseGPL-2
Version1.1.4

View on CRAN

Man pages

Armitage: Armitage's trend test for the 2x3 genotype table

Armitage.MCPerm: A Monte Carlo permutation method for Armitage's trend test in...

Armitage.TradPerm: A permutation method for Armitage's trend test in...

chisq.MCPerm: A Monte Carlo permutation method for multiple chisq.test...

chisq.TradPerm: A permutation test for multiple chisq.test correction in...

fisher.MCPerm: A Monte Carlo permutation method for multiple fisher.test...

fisher.TradPerm: A permutation test for multiple fisher.test correction in...

genotypeData: Genotype Data from GWA16

genotypeStat: Statistical Allele and Genotype Frequency of the specified...

HW.test: Hardy-weinberg equilibrium test

I2.MCPerm: Calculate p.value for Heterogeneity statistics I2 in meta...

I2.TradPerm: Calculate p.value for Heterogeneity statistics I2 in meta...

MCPerm-package: A Monte Carlo permutation method for multiple test...

meta: Meta analysis

MetaGenotypeCount: rs3131296 genetic association studies from SZGene database

MetaGenotypeData: genotype raw data for rs3131296 genetic association studies

meta.MCPerm: Meta analysis corrected by permutation test

meta.TradPerm: Meta analysis corrected by permutation test

OR: OR(odd ratio) for risk_allele

OR.MCPerm: A Monte Carlo permutation method for multiple OR(odd ratio)...

OR.TradPerm: A permutation test for multiple OR(odd ratio) test correction...

pearson_scatter: scatter plot and calculate Pearson correlation coefficient...

PermMeta.boxplot: boxplot for the result of 'meta.MCPerm' or 'meta.TradPerm'

PermMeta.Hist: histplot for the result of 'meta.MCPerm' or 'meta.TradPerm'

PermMeta.LnOR.boxplot: boxplot for the return value 'perm_LnOR' or 'perm_VARLnOR' of...

PermMeta.LnOR.CDC: cumulative distribution curve for the return value...

PermMeta.LnOR.Hist: histplot for the return value 'perm_LnOR' or 'perm_VARLnOR'...

PermMeta.LnOR.qqnorm: qqnorm plot for the return value 'perm_LnOR' of 'meta.MCPerm'...

permuteGenotype: Permute the elements of genotype data

permuteGenotypeCount: Fill the numerics of 2*3 table when fixed the row and column...

print.PermMeta: Print style for function 'meta.MCPerm' or 'meta.TradPerm'

Q.MCPerm: Correct p.value for Heterogeneity statistics Q in meta...

Q.TradPerm: Correct p.value for Heterogeneity statistics Q in meta...

VS.Allele.CDC: separately plot cumulative distribution curve for the return...

VS.Allele.Hist: separately plot histplot for the return value(allele count)...

VS.Allele.QQ: separately plot quantile-quantile plot for the return...

VS.CDC: plot cumulative distribution curve for the return value of...

VS.Genotype.CDC: separately plot cumulative distribution curve for the return...

VS.Genotype.Hist: separately plot histplot for the return value(genotype count)...

VS.Genotype.QQ: separately plot quantile-quantile plot for the return...

VS.Hist: plot histplot for the return value of 'meta.TradPerm' and...

VS.KS: Kolmogorov-Smirnov test for the return value of...

VS.QQ: plot quantile-quantile plot for the return value of...

Files in this package

MCPerm
MCPerm/MD5
MCPerm/NAMESPACE
MCPerm/DESCRIPTION
MCPerm/data
MCPerm/data/MetaGenotypeData.rda
MCPerm/data/MetaGenotypeCount.rda
MCPerm/data/genotypeData.rda
MCPerm/man
MCPerm/man/VS.QQ.Rd MCPerm/man/VS.KS.Rd MCPerm/man/VS.Hist.Rd MCPerm/man/VS.Genotype.QQ.Rd MCPerm/man/VS.Genotype.Hist.Rd MCPerm/man/VS.Genotype.CDC.Rd MCPerm/man/VS.CDC.Rd MCPerm/man/VS.Allele.QQ.Rd MCPerm/man/VS.Allele.Hist.Rd MCPerm/man/VS.Allele.CDC.Rd MCPerm/man/Q.TradPerm.Rd MCPerm/man/Q.MCPerm.Rd MCPerm/man/print.PermMeta.Rd MCPerm/man/permuteGenotypeCount.Rd MCPerm/man/permuteGenotype.Rd MCPerm/man/PermMeta.LnOR.qqnorm.Rd MCPerm/man/PermMeta.LnOR.Hist.Rd MCPerm/man/PermMeta.LnOR.CDC.Rd MCPerm/man/PermMeta.LnOR.boxplot.Rd MCPerm/man/PermMeta.Hist.Rd MCPerm/man/PermMeta.boxplot.Rd MCPerm/man/pearson_scatter.Rd MCPerm/man/OR.TradPerm.Rd MCPerm/man/OR.MCPerm.Rd MCPerm/man/OR.Rd MCPerm/man/MetaGenotypeData.Rd MCPerm/man/MetaGenotypeCount.Rd MCPerm/man/meta.TradPerm.Rd MCPerm/man/meta.MCPerm.Rd MCPerm/man/meta.Rd MCPerm/man/I2.TradPerm.Rd MCPerm/man/I2.MCPerm.Rd MCPerm/man/HW.test.Rd MCPerm/man/genotypeStat.Rd MCPerm/man/genotypeData.Rd MCPerm/man/fisher.TradPerm.Rd MCPerm/man/fisher.MCPerm.Rd MCPerm/man/chisq.TradPerm.Rd MCPerm/man/chisq.MCPerm.Rd MCPerm/man/Armitage.TradPerm.Rd MCPerm/man/Armitage.MCPerm.Rd MCPerm/man/Armitage.Rd MCPerm/man/MCPerm-package.Rd
MCPerm/R
MCPerm/R/VS.QQ.R MCPerm/R/VS.KS.R MCPerm/R/VS.Hist.R MCPerm/R/VS.Genotype.QQ.R MCPerm/R/VS.Genotype.Hist.R MCPerm/R/VS.Genotype.CDC.R MCPerm/R/VS.CDC.R MCPerm/R/VS.Allele.QQ.R MCPerm/R/VS.Allele.Hist.R MCPerm/R/VS.Allele.CDC.R MCPerm/R/Q.TradPerm.R MCPerm/R/Q.MCPerm.R MCPerm/R/print.PermMeta.R MCPerm/R/permuteGenotypeCount.R MCPerm/R/permuteGenotype.R MCPerm/R/PermMeta.LnOR.qqnorm.R MCPerm/R/PermMeta.LnOR.Hist.R MCPerm/R/PermMeta.LnOR.CDC.R MCPerm/R/PermMeta.LnOR.boxplot.R MCPerm/R/PermMeta.Hist.R MCPerm/R/PermMeta.boxplot.R MCPerm/R/pearson_scatter.R MCPerm/R/OR.TradPerm.R MCPerm/R/OR.MCPerm.R MCPerm/R/OR.R MCPerm/R/meta.TradPerm.R MCPerm/R/meta.MCPerm.R MCPerm/R/meta.R MCPerm/R/I2.TradPerm.R MCPerm/R/I2.MCPerm.R MCPerm/R/HW.test.R MCPerm/R/genotypeStat.R MCPerm/R/fisher.TradPerm.R MCPerm/R/fisher.MCPerm.R MCPerm/R/chisq.TradPerm.R MCPerm/R/chisq.MCPerm.R MCPerm/R/Armitage.TradPerm.R MCPerm/R/Armitage.MCPerm.R
MCPerm/R/Armitage.R

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