/usr/lib/R/site-library/snpStats/help/AnIndex is in r-bioc-snpstats 1.28.0+dfsg-1.
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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 | snpStats-package snpStats-package
Asnps testdata
Autosomes testdata
can.impute imputation.maf
cbind,SnpMatrix-method SnpMatrix-class
cbind2,SnpMatrix,SnpMatrix-method SnpMatrix-class
ceph.1mb ld.example
chi.squared chi.squared
chi.squared,GlmTests,missing-method GlmTests-class
chi.squared,SingleSnpTests,numeric-method SingleSnpTests-class
coerce,GlmEstimates,GlmTests-method GlmEstimates-class
coerce,GlmTests,data.frame-method GlmTests-class
coerce,matrix,SnpMatrix-method SnpMatrix-class
coerce,SingleSnpTests,data.frame-method SingleSnpTests-class
coerce,SnpMatrix,character-method SnpMatrix-class
coerce,SnpMatrix,numeric-method SnpMatrix-class
coerce,SnpMatrix,XSnpMatrix-method XSnpMatrix-class
coerce,XSnpMatrix,character-method XSnpMatrix-class
col.summary row.summary
convert.snpMatrix convert.snpMatrix
convert.snpMatrix.dir convert.snpMatrix
deg.freedom chi.squared
deg.freedom,GlmTests-method GlmTests-class
effect.sign chi.squared
effect.sign,GlmTests,logical-method GlmTests-class
effect.sign,SingleSnpTestsScore,missing-method SingleSnpTests-class
effective.sample.size chi.squared
effective.sample.size,SingleSnpTests-method SingleSnpTests-class
example-new example-new
families families
filter.rules filter.rules
for.exercise for.exercise
Fst Fst
g2post mean2g
genotypes families
glm.test.control glm.test.control
GlmEstimates-class GlmEstimates-class
GlmTests-class GlmTests-class
GlmTestsScore-class GlmTests-class
ibsCount ibsCount
ibsDist ibsDist
imputation.maf imputation.maf
imputation.nsnp imputation.maf
imputation.r2 imputation.maf
ImputationRules-class ImputationRules-class
impute.snps impute.snps
initialize,SnpMatrix-method SnpMatrix-class
initialize,XSnpMatrix-method XSnpMatrix-class
is.na,SnpMatrix-method SnpMatrix-class
ld ld
ld.example ld.example
mach1.out.mlprob.gz sample
mean2g mean2g
misinherits misinherits
mvtests mvtests
names,GlmTests-method GlmTests-class
names,SingleSnpTests-method SingleSnpTests-class
p.value chi.squared
p.value,GlmTests,missing-method GlmTests-class
p.value,SingleSnpTests,numeric-method SingleSnpTests-class
pedData families
plot,ImputationRules,missing-method ImputationRules-class
plotUncertainty plotUncertainty
pool pool
pool2 pool2
pool2,GlmTestsScore,GlmTestsScore,logical-method GlmTests-class
pool2,SingleSnpTestsScore,SingleSnpTestsScore,logical-method SingleSnpTests-class
post2g mean2g
pp pp
qq.chisq qq.chisq
random.snps random.snps
rbind,SnpMatrix-method SnpMatrix-class
rbind2,SnpMatrix,SnpMatrix-method SnpMatrix-class
read.beagle read.beagle
read.impute read.impute
read.long read.long
read.mach read.mach
read.pedfile read.pedfile
read.plink read.plink
read.snps.long read.snps.long
row.summary row.summary
sample-long-alleles.gz sample
sample-long.gz sample
sample.bed sample
sample.bim sample
sample.fam sample
sample.info sample
sample.size chi.squared
sample.size,GlmTests-method GlmTests-class
sample.size,SingleSnpTests-method SingleSnpTests-class
show,GlmEstimates-method GlmEstimates-class
show,GlmTests-method GlmTests-class
show,ImputationRules-method ImputationRules-class
show,SingleSnpTests-method SingleSnpTests-class
show,SnpMatrix-method SnpMatrix-class
show,XSnpMatrix-method XSnpMatrix-class
single.snp.tests single.snp.tests
SingleSnpTests-class SingleSnpTests-class
SingleSnpTestsScore-class SingleSnpTests-class
sm.compare sm.compare
snp.cor snp.cor
snp.imputation snp.imputation
snp.lhs.estimates snp.lhs.estimates
snp.lhs.tests snp.lhs.tests
snp.post.multiply snp.pre.multiply
snp.pre.multiply snp.pre.multiply
snp.rhs.estimates snp.rhs.estimates
snp.rhs.tests snp.rhs.tests
snp.support for.exercise
SnpMatrix-class SnpMatrix-class
snps.10 for.exercise
snpStats snpStats-package
subject.data testdata
subject.support for.exercise
summary,GlmTests-method GlmTests-class
summary,ImputationRules-method ImputationRules-class
summary,SingleSnpTests-method SingleSnpTests-class
summary,SnpMatrix-method SnpMatrix-class
summary,XSnpMatrix-method XSnpMatrix-class
support.ld ld.example
switch.alleles switch.alleles
switch.alleles,GlmTestsScore,character-method GlmTests-class
switch.alleles,SingleSnpTestsScore,ANY-method SingleSnpTests-class
switch.alleles,SnpMatrix,ANY-method SnpMatrix-class
tdt.snp tdt.snp
test.allele.switch test.allele.switch
testdata testdata
write.plink write.plink
write.SnpMatrix write.snp.matrix
Xchromosome testdata
XSnpMatrix-class XSnpMatrix-class
Xsnps testdata
xxt xxt
yri.1mb ld.example
[,GlmEstimates,ANY,missing,missing-method GlmEstimates-class
[,GlmTests,ANY,missing,missing-method GlmTests-class
[,GlmTestsScore,ANY,missing,missing-method GlmTests-class
[,ImputationRules,ANY,missing,missing-method ImputationRules-class
[,SingleSnpTests,ANY,missing,missing-method SingleSnpTests-class
[,SingleSnpTestsScore,ANY,missing,missing-method SingleSnpTests-class
[,SnpMatrix,ANY,ANY,ANY-method SnpMatrix-class
[,XSnpMatrix,ANY,ANY,ANY-method XSnpMatrix-class
[<-,XSnpMatrix,ANY,ANY,XSnpMatrix-method XSnpMatrix-class
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