dualKS: Dual KS Discriminant Analysis and Classification

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.

Author
Eric J. Kort, Yarong Yang
Date of publication
None
Maintainer
Eric J. Kort <ericjkort@gmail.com>, Yarong Yang <yarong.yang@ndsu.edu>
License
LGPL (>= 2.0)
Version
1.34.0

View on Bioconductor

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.

Files in this package

dualKS/DESCRIPTION
dualKS/NAMESPACE
dualKS/R
dualKS/R/AllClasses.R
dualKS/R/KS.R
dualKS/R/dksClassify.R
dualKS/R/dksCustomClass.R
dualKS/R/dksPerm.R
dualKS/R/dksSelectGenes.R
dualKS/R/dksToGeneSet.R
dualKS/R/dksTrain.R
dualKS/R/dksWeights.R
dualKS/R/makeClassifier.R
dualKS/R/plot-methods.R
dualKS/R/predictClass.R
dualKS/R/rKS.R
dualKS/R/rKSScan.R
dualKS/R/show-methods.R
dualKS/R/summary-methods.R
dualKS/build
dualKS/build/vignette.rds
dualKS/data
dualKS/data/dks.rda
dualKS/inst
dualKS/inst/doc
dualKS/inst/doc/dualKS.R
dualKS/inst/doc/dualKS.pdf
dualKS/inst/doc/dualKS.rnw
dualKS/man
dualKS/man/KS.Rd
dualKS/man/class.DKSClassifier.Rd
dualKS/man/class.DKSGeneScores.Rd
dualKS/man/class.DKSGeneSet.Rd
dualKS/man/class.DKSPredicted.Rd
dualKS/man/dks.Rd
dualKS/man/dksClassify.Rd
dualKS/man/dksCustomClass.Rd
dualKS/man/dksPerm.Rd
dualKS/man/dksSelectGenes.Rd
dualKS/man/dksTrain.Rd
dualKS/man/dksWeights.Rd
dualKS/man/dualKS-package.Rd
dualKS/vignettes
dualKS/vignettes/dualKS.rnw
dualKS/vignettes/dualks.bib