snpStats
SnpMatrix and XSnpMatrix classes and methods

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snpStats: SnpMatrix and XSnpMatrix classes and methods
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API

API for snpStats
SnpMatrix and XSnpMatrix classes and methods

Global functions
.col.numbers Source code
.contingency.table Source code
.forceHom Source code
.guessPloidy Source code
Asnps Man page
Autosomes Man page
Fst Man page Source code
GlmEstimates-class Man page
GlmTests-class Man page
GlmTestsScore-class Man page
ImputationRules-class Man page
SingleSnpTests-class Man page
SingleSnpTestsScore-class Man page
SnpMatrix-class Man page
XSnpMatrix-class Man page
Xchromosome Man page
Xsnps Man page
[,GlmEstimates,ANY,missing,missing-method Man page
[,GlmTests,ANY,missing,missing-method Man page
[,GlmTestsScore,ANY,missing,missing-method Man page
[,ImputationRules,ANY,missing,missing-method Man page
[,SingleSnpTests,ANY,missing,missing-method Man page
[,SingleSnpTestsScore,ANY,missing,missing-method Man page
[,SnpMatrix,ANY,ANY,ANY-method Man page
[,XSnpMatrix,ANY,ANY,ANY-method Man page
[<-,XSnpMatrix,ANY,ANY,XSnpMatrix-method Man page
can.impute Man page Source code
cbind,SnpMatrix-method Man page
cbind2,SnpMatrix,SnpMatrix-method Man page
ceph.1mb Man page
chi.squared Man page
chi.squared,GlmTests,missing-method Man page
chi.squared,SingleSnpTests,numeric-method Man page
coerce,GlmEstimates,GlmTests-method Man page
coerce,GlmTests,data.frame-method Man page
coerce,SingleSnpTests,data.frame-method Man page
coerce,SnpMatrix,XSnpMatrix-method Man page
coerce,SnpMatrix,character-method Man page
coerce,SnpMatrix,numeric-method Man page
coerce,XSnpMatrix,character-method Man page
coerce,matrix,SnpMatrix-method Man page
col.summary Man page Source code
convert.snpMatrix Man page Source code
convert.snpMatrix.dir Man page Source code
deg.freedom Man page
deg.freedom,GlmTests-method Man page
effect.sign Man page
effect.sign,GlmTests,logical-method Man page
effect.sign,SingleSnpTestsScore,missing-method Man page
effective.sample.size Man page
effective.sample.size,SingleSnpTests-method Man page
example-new Man page
families Man page
filter.rules Man page Source code
for.exercise Man page
g2post Man page Source code
genotypes Man page
glm.test.control Man page Source code
ibsCount Man page Source code
ibsDist Man page Source code
imputation.maf Man page Source code
imputation.nsnp Man page Source code
imputation.r2 Man page Source code
impute.snps Man page Source code
initialize,SnpMatrix-method Man page
initialize,XSnpMatrix-method Man page
is.na,SnpMatrix-method Man page
ld Man page Source code
ld.example Man page
mach1.out.mlprob.gz Man page
mean2g Man page Source code
misinherits Man page Source code
mvtests Man page Source code
names,GlmTests-method Man page
names,SingleSnpTests-method Man page
p.value Man page
p.value,GlmTests,missing-method Man page
p.value,SingleSnpTests,numeric-method Man page
pedData Man page
plot,ImputationRules,missing-method Man page
plotUncertainty Man page Source code
pool Man page Source code
pool2 Man page
pool2,GlmTestsScore,GlmTestsScore,logical-method Man page
pool2,SingleSnpTestsScore,SingleSnpTestsScore,logical-method Man page
post2g Man page Source code
pp Man page Source code
qq.chisq Man page Source code
random.snps Man page Source code
rbind,SnpMatrix-method Man page
rbind2,SnpMatrix,SnpMatrix-method Man page
read.beagle Man page Source code
read.impute Man page Source code
read.long Man page Source code
read.mach Man page Source code
read.pedfile Man page Source code
read.plink Man page Source code
read.snps.long Man page Source code
row.summary Man page Source code
sample-long-alleles.gz Man page
sample-long.gz Man page
sample.bed Man page
sample.bim Man page
sample.fam Man page
sample.info Man page
sample.size Man page
sample.size,GlmTests-method Man page
sample.size,SingleSnpTests-method Man page
show,GlmEstimates-method Man page
show,GlmTests-method Man page
show,ImputationRules-method Man page
show,SingleSnpTests-method Man page
show,SnpMatrix-method Man page
show,XSnpMatrix-method Man page
single.snp.tests Man page Source code
sm.compare Man page Source code
snp.cbind Source code
snp.cor Man page Source code
snp.imputation Man page Source code
snp.lhs.estimates Man page Source code
snp.lhs.tests Man page Source code
snp.post.multiply Man page Source code
snp.pre.multiply Man page Source code
snp.rbind Source code
snp.rhs.estimates Man page Source code
snp.rhs.tests Man page Source code
snp.support Man page
snpStats Man page
snpStats-package Man page
snps.10 Man page
subject.data Man page
subject.support Man page
summary,GlmTests-method Man page
summary,ImputationRules-method Man page
summary,SingleSnpTests-method Man page
summary,SnpMatrix-method Man page
summary,XSnpMatrix-method Man page
support.ld Man page
switch.alleles Man page
switch.alleles,GlmTestsScore,character-method Man page
switch.alleles,SingleSnpTestsScore,ANY-method Man page
switch.alleles,SnpMatrix,ANY-method Man page
tdt.snp Man page Source code
test.allele.switch Man page Source code
testdata Man page
write.SnpMatrix Man page Source code
write.plink Man page Source code
xxt Man page Source code
yri.1mb Man page
snpStats documentation built on Nov. 8, 2020, 10:59 p.m.

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