Sampletrees Input/Output Processing

Documentation for package ‘Rsampletrees’ version 0.1

Rsampletrees-package	Pre and Post-Processing of sampletrees output
addTrees	Read in trees and add them to the tree output object
addTreeStat	Add tree statistics to a treeoutput object
changeArgs	Create or modify a sampletrees settings object
changeArgs.pars	Create or modify a sampletrees settings object
changeArgs.treeoutput	Modify the settings stored in a sampletrees treeoutput object
checkArgs	Error checking for the arguments to sampletrees
estimateHap	Estimate and write haplotype probabilities and initial values to files
merge.treeoutput	Merge the results from two runs of sampletrees
newArgs	Create or modify a sampletrees settings object
plot.treeoutput	Plot selected output of a sampletrees run
print.pars	Nice display of tags and values of a sampletrees settings object
print.treeoutput	Nice display of a treeoutput object
readArgs	Read arguments for a sampletrees run from a settings file
readOutput	Read in sampletrees output
readTrees	Read in trees from a run of sampletrees.
restartRun	Set up a settings object for continuing a previous sampletrees run
Rsampletrees	Pre and Post-Processing of sampletrees output
setWeights	Set weights for the sampletrees proposal distributions
summary.treeoutput	Summary of a tree output object
treeapply	Apply a function to the sampled trees
writeArgs	Write arguments for a sampletrees run to a file in the format required for sampletrees
writeTreeoutput	Write the results of a sampletrees run to file