Man pages for PIGShift
Polygenic Inverse Gamma Shifts

compute.sqrt.distCompute the vector of branch scaling parameters
dmvnorminvgammaCompute the pdf for multi-variate normal-inverse-gamma random...
dnorminvgammaCompute the pdf for normal-inverse-gamma random variates
GO.groupsGO terms and genes
good.groupsFind groups represented in the data
mean_invgammaThe mean of the inverse gamma distribution
normalize.vcvCompute the variance-covariance matrix of normalized...
norminvgamma.shift.like.normCalculate the likelihood of normalized comparative data as...
norminvgamma.shift.sim.groupSimulate phylogenetic comparative data as Brownian motions...
OU.invgamma.like.normCalculate the likelihood of normalized comparative data as...
OU.invgamma.sim.groupSimulate phylogenetic comparative data as OUs with inverse...
OU.vcvThe variance covariance matrix for an Ornstein-Uhlenbeck...
plot_logfoldchangePlot densities of expression differences, possibly normalized
plot_wAICbarplotPlot a barplot of AIC weights for each model and each gene...
read.expRead gene expression data from a file, sorted by a...
read.groupsRead in the members of a gene group
remove.from.genomeRemove genes from a specified group from the data
rnorminvgammaDraw normal-inverse-gamma distributed random variates
test.groupsTest all possible single-rate shift Brownian motion models...
test.subtreesTest all possible single-rate shift Brownian motion models...
var_invgammaThe variance of the inverse gamma distribution
yeast.homozygoteYeast homozygote transcription profiles
yeast.hybridYeast hybrid transcription profiles
yeast.treePhylogenetic tree of yeast species
PIGShift documentation built on May 29, 2017, 11:20 p.m.