clstutils: Tools for performing taxonomic assignment.

Tools for performing taxonomic assignment based on phylogeny using pplacer and clst.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("clstutils")
AuthorNoah Hoffman
Bioconductor views Classification QualityControl Sequencing Visualization
Date of publicationNone
MaintainerNoah Hoffman <ngh2@uw.edu>
LicenseGPL-3
Version1.22.0

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/placeTools.R R/prettyTree.R R/svgTree.R R/taxTools.R R/treeTools.R
build
build/vignette.rds
data
data/seqdat.rda
data/seqs.rda
devmakefile
inst
inst/doc
inst/doc/pplacerDemo.R
inst/doc/pplacerDemo.Rnw
inst/doc/pplacerDemo.pdf
inst/doc/refSet.R
inst/doc/refSet.Rnw
inst/doc/refSet.pdf
inst/extdata
inst/extdata/merged.distmat.bz2
inst/extdata/merged.json
inst/extdata/notes.txt
inst/extdata/vaginal_16s.refpkg.tar.gz
man
man/classifyPlacements.Rd man/clstutils-package.Rd man/findOutliers.Rd man/maxDists.Rd man/prettyTree.Rd man/refpkgContents.Rd man/seqdat.Rd man/seqs.Rd man/taxonomyFromRefpkg.Rd man/treeDists.Rd
tests
tests/runalltests.R
tests/runfile.sh
tests/unit
tests/unit/Makefile
tests/unit/README.txt
tests/unit/data_test.R tests/unit/dependencies_test.R tests/unit/placeTools_test.R tests/unit/setup.R tests/unit/taxTools_test.R tests/unit/treeTools_test.R
vignettes
vignettes/_makefile
vignettes/pplacerDemo.Rnw
vignettes/refSet.Rnw

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.