dualKS: Dual KS Discriminant Analysis and Classification
Version 1.36.0

This package implements a Kolmogorov Smirnov rank-sum based algorithm for training (i.e. discriminant analysis--identification of genes that discriminate between classes) and classification of gene expression data sets. One of the chief strengths of this approach is that it is amenable to the "multiclass" problem. That is, it can discriminate between more than 2 classes.

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AuthorEric J. Kort, Yarong Yang
Bioconductor views Classification Microarray
Date of publicationNone
MaintainerEric J. Kort <ericjkort@gmail.com>, Yarong Yang <yarong.yang@ndsu.edu>
LicenseLGPL (>= 2.0)
Version1.36.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("dualKS")

Man pages

class.DKSClassifier: Class to contain gene set signatures.
class.DKSGeneScores: Class to contain dual Kolmogorov Smirnov rank sum...
class.DKSGeneSet: Class to contain gene signatures.
class.DKSPredicted: Class to contain classification results from dksClassify
dks: A demonstration data set for package dualKS.
dksClassify: Predict classes for gene expression sets.
dksCustomClass: Create a classification object from predefined gene...
dksPerm: Estimate significance of signature scores.
dksSelectGenes: Extract gene signatures from a DKSGeneScores object.
dksTrain: Perform Dual KS Discriminant Analysis
dksWeights: Calculate gene weights based on average expression.
dualKS-package: Dual KS Discriminant Analysis and Classification
KS: Calculate Kolmogorov Smirnov rank sum scores.

Functions

DKSClassifier Man page
DKSClassifier-class Man page
DKSGeneScores Man page
DKSGeneScores-class Man page
DKSGeneSet Man page
DKSGeneSet-class Man page
DKSPredicted Man page
DKSPredicted-class Man page
KS Man page
class:DKSClassifier Man page
class:DKSGeneScores Man page
class:DKSGeneSet Man page
class:DKSPredicted Man page
dks Man page
dksClassify Man page
dksCustomClass Man page
dksPerm Man page
dksSelectGenes Man page
dksTrain Man page
dksWeights Man page
dualKS Man page
dualKS-package Man page
eset Man page
plot,DKSPredicted,missing-method Man page
plot,DKSPredicted-method Man page
pv.f Man page
pvr.f Man page
show,DKSPredicted-method Man page
summary,DKSPredicted-method Man page

Files

DESCRIPTION
NAMESPACE
R
R/AllClasses.R
R/KS.R
R/dksClassify.R
R/dksCustomClass.R
R/dksPerm.R
R/dksSelectGenes.R
R/dksToGeneSet.R
R/dksTrain.R
R/dksWeights.R
R/makeClassifier.R
R/plot-methods.R
R/predictClass.R
R/rKS.R
R/rKSScan.R
R/show-methods.R
R/summary-methods.R
build
build/vignette.rds
data
data/dks.rda
inst
inst/doc
inst/doc/dualKS.R
inst/doc/dualKS.pdf
inst/doc/dualKS.rnw
man
man/KS.Rd
man/class.DKSClassifier.Rd
man/class.DKSGeneScores.Rd
man/class.DKSGeneSet.Rd
man/class.DKSPredicted.Rd
man/dks.Rd
man/dksClassify.Rd
man/dksCustomClass.Rd
man/dksPerm.Rd
man/dksSelectGenes.Rd
man/dksTrain.Rd
man/dksWeights.Rd
man/dualKS-package.Rd
vignettes
vignettes/dualKS.rnw
vignettes/dualks.bib
dualKS documentation built on May 20, 2017, 9:46 p.m.