API for gaston
Genetic Data Handling (QC, GRM, LD, PCA) & Linear Mixed Models

Global functions
AGT Man page
AGT.bim Man page
AGT.fam Man page
AGT.gen Man page
AGT.pop Man page
DM Man page Source code
GRM Man page Source code
LCT Man page
LCT.bim Man page
LCT.fam Man page
LCT.gen Man page
LCT.pop Man page
LD Man page Source code
LD.plot Man page Source code
LD.thin Man page Source code
SNP.duplicated Man page Source code
SNP.match Man page Source code
SNP.rm.duplicates Man page Source code
TTN Man page
TTN.bim Man page
TTN.fam Man page
TTN.gen Man page
TTN.pop Man page
[,bed.matrix,logical,logical,missing-method Man page
[,bed.matrix,logical,missing,missing-method Man page
[,bed.matrix,logical,numeric,missing-method Man page
[,bed.matrix,missing,logical,missing-method Man page
[,bed.matrix,missing,numeric,missing-method Man page
[,bed.matrix,numeric,logical,missing-method Man page
[,bed.matrix,numeric,missing,missing-method Man page
[,bed.matrix,numeric,numeric,missing-method Man page
\%*\%,bed.matrix,matrix-method Man page
\%*\%,bed.matrix,vector-method Man page
\%*\%,matrix,bed.matrix-method Man page
\%*\%,vector,bed.matrix-method Man page
all.eq Source code
alleles.recoding Source code
as.bed.matrix Man page Source code
as.matrix,bed.matrix-method Man page
association.test Man page Source code
bed.loadings Man page Source code
bed.matrix Man page
bed.matrix-class Man page
bed.merge.inds Source code
bed_cbind Source code
bed_rbind Source code
cbind Man page
cbind,bed.matrix-method Man page
coerce,bed.matrix,matrix-method Man page
coerce,bed.matrix,vector-method Man page
coerce,matrix,bed.matrix-method Man page
coerce,vector,bed.matrix-method Man page
davies Source code
dim,bed.matrix-method Man page
dupli Man page
dupli.bim Man page
dupli.gen Man page
dupli.ped Man page
dupli.pop Man page
gaston Man page
gaston-package Man page
grm.values Source code
head,bed.matrix-method Man page
invert_snp_coding Source code
is.autosome Man page Source code
is.chr.mt Man page Source code
is.chr.x Man page Source code
is.chr.y Man page Source code
is.null.df Source code
lik.contour Man page Source code
lmm.aireml Man page Source code
lmm.diago Man page Source code
lmm.diago.likelihood Man page Source code
lmm.diago.profile.likelihood Man page Source code
lmm.profile.restricted.likelihood Man page Source code
lmm.restricted.likelihood Man page Source code
lmm.simu Man page Source code
logistic.mm.aireml Man page Source code
logp.thinning Source code
manhattan Man page Source code
manhattan.thinning Source code
matrix,data.frameOrNULL,data.frameOrNULL-method Man page
mu Man page
mu,bed.matrix-method Man page
mu<- Man page
mu<-,bed.matrix-method Man page
onAttach Source code
onLoad Source code
p Man page
p,bed.matrix-method Man page
p<- Man page
p<-,bed.matrix-method Man page
pvalues.thinning Source code
qqplot.pvalues Man page Source code
r_check_limit_cores Source code
random.ortho Source code
random.pm Man page Source code
rbind Man page
rbind,bed.matrix-method Man page
read.bed.matrix Man page Source code
read.vcf Man page Source code
read.vcf.filtered Source code
reshape.GRM Man page Source code
score.fixed.linear Man page Source code
score.fixed.logistic Man page Source code
score.variance.linear Man page Source code
score.variance.logistic Man page Source code
select.inds Man page Source code
select.snps Man page Source code
set.dist Man page Source code
set.genomic.sex Man page Source code
set.hwe Man page Source code
set.stats Man page Source code
set.stats.ped Man page Source code
set.stats.snps Man page Source code
set_snp_to_na Source code
show,bed.matrix-method Man page
sigma Man page
sigma,bed.matrix-method Man page
sigma<- Man page
sigma<-,bed.matrix-method Man page
snp.sq Source code
snp_hz_to_na Source code
standardize Man page
standardize,bed.matrix-method Man page
standardize<- Man page
standardize<-,bed.matrix-method Man page
test.inds Man page Source code
test.snps Man page Source code
trans.X Source code
void_ped_stats Source code
void_snps_stats Source code
which.inds Man page Source code
which.snps Man page Source code
write.bed.matrix Man page Source code
gaston documentation built on July 16, 2018, 1:02 a.m.