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clst (version 1.20.0)

Classification by local similarity threshold

Description

Package for modified nearest-neighbor classification based on calculation of a similarity threshold distinguishing within-group from between-group comparisons.

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Version

Version

1.20.0

License

GPL-3

Maintainer

Noah Hoffman

Last Published

February 15th, 2017

Functions in clst (1.20.0)

actino

Actinomyces data set
treeDists

Provide objects for determining distances among nodes of a reference tree.
classify

classify
refpkgContents

Read the contents of a collection of reference sequences ("refpkg").
prettyTree

Draw an annotated phylogenetic tree.
plotDistances

Visualize results of link{findThreshold}
printClst

Print a summary of the classifier output.
seqs

Enterococcus sequence data set.
bvseqs

BV reference set.
clstutils-package

Sequence based classification and selection of reference sequences.
scaleDistPlot

Annotated multidimensional scaling plots.
strep

Streptococcus data set.
taxonomyFromRefpkg

Extract taxonomic information from a refpkg.
findOutliers

Identify outlier objects given a square distance matrix.
classifyPlacements

Taxonomic classification by phylogenetic placement.
clst-package

Classification by local similarity threshold
findThreshold

findThreshold
seqdat

Annotation for the Enterococcus sequence data set.
maxDists

Select a maximally diverse set of items given a distance matrix.