HMPTrees: Statistical Object Oriented Data Analysis of RDP-Based Taxonomic Trees from Human Microbiome Data

Tools to model, compare, and visualize populations of taxonomic tree objects.

AuthorPatricio S. La Rosa, Elena Deych, Berkley Shands, William D. Shannon
Date of publication2016-01-19 23:53:07
MaintainerBerkley Shands <rpackages@biorankings.com>
LicenseApache License (== 2.0)
Version1.3

View on CRAN

Functions

buildTree Man page
checkTreeValidHelp Man page
checkTreeValidity Man page
compareTwoDataSets Man page
createAndPlot Man page
createTrees Man page
displayLegend Man page
formatData Man page
generateTree Man page
getBranchSizes Man page
getMLEandLoglike Man page
getTaxaDepth Man page
HMPTrees Man page
HMPTrees-internal Man page
HMPTrees-package Man page
mergeDataSets Man page
pairedCompareTwoDataSets Man page
plotTree Man page
plotTreeDataMDS Man page
removeUnclass Man page
saliva Man page
stool Man page
subsetData Man page
throat Man page
transformHMPtoHMPTree Man page
transformHMPTreetoHMP Man page
traverseTree Man page
traverseTreeHelp Man page
trimToTaxaLevel Man page

Files

HMPTrees
HMPTrees/inst
HMPTrees/inst/doc
HMPTrees/inst/doc/Creating-Data-From-RDP-Tutorial.Rnw
HMPTrees/inst/doc/Creating-Data-From-RDP-Tutorial.pdf
HMPTrees/NAMESPACE
HMPTrees/NEWS
HMPTrees/data
HMPTrees/data/saliva.rda
HMPTrees/data/throat.rda
HMPTrees/data/stool.rda
HMPTrees/R
HMPTrees/R/getBranchSizes.R HMPTrees/R/traverseTreeHelp.R HMPTrees/R/createTrees.R HMPTrees/R/transformHMPtoHMPTree.R HMPTrees/R/pairedCompareTwoDataSets.R HMPTrees/R/getTaxaDepth.R HMPTrees/R/plotTree.R HMPTrees/R/trimToTaxaLevel.R HMPTrees/R/subsetData.R HMPTrees/R/traverseTree.R HMPTrees/R/createAndPlot.R HMPTrees/R/buildTree.R HMPTrees/R/transformHMPTreetoHMP.R HMPTrees/R/generateTree.R HMPTrees/R/displayLegend.R HMPTrees/R/plotTreeDataMDS.R HMPTrees/R/mergeDataSets.R HMPTrees/R/removeUnclass.R HMPTrees/R/formatData.R HMPTrees/R/getMLEandLoglike.R HMPTrees/R/checkTreeValidity.R HMPTrees/R/compareTwoDataSets.R HMPTrees/R/checkTreeValidHelp.R
HMPTrees/vignettes
HMPTrees/vignettes/Creating-Data-From-RDP-Tutorial.Rnw
HMPTrees/MD5
HMPTrees/build
HMPTrees/build/vignette.rds
HMPTrees/DESCRIPTION
HMPTrees/man
HMPTrees/man/HMPTrees-internal.Rd HMPTrees/man/displayLegend.Rd HMPTrees/man/transformHMPtoHMPTree.Rd HMPTrees/man/transformHMPTreetoHMP.Rd HMPTrees/man/trimToTaxaLevel.Rd HMPTrees/man/pairedCompareTwoDataSets.Rd HMPTrees/man/generateTree.Rd HMPTrees/man/plotTree.Rd HMPTrees/man/checkTreeValidity.Rd HMPTrees/man/createAndPlot.Rd HMPTrees/man/throat.Rd HMPTrees/man/stool.Rd HMPTrees/man/formatData.Rd HMPTrees/man/compareTwoDataSets.Rd HMPTrees/man/mergeDataSets.Rd HMPTrees/man/HMPTrees-package.Rd HMPTrees/man/getMLEandLoglike.Rd HMPTrees/man/saliva.Rd HMPTrees/man/plotTreeDataMDS.Rd HMPTrees/man/createTrees.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.