MBCluster.Seq: Model-Based Clustering for RNA-seq Data
Version 1.0

Cluster genes based on Poisson or Negative-Binomial model for RNA-Seq or other digital gene expression (DGE) data

Browse man pages Browse package API and functions Browse package files

AuthorYaqing Si
Date of publication2012-10-29 08:57:16
MaintainerYaqing Si <siyaqing@gmail.com>
LicenseGPL (>= 3)
Version1.0
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("MBCluster.Seq")

Man pages

Cluster.RNASeq: Do clustering for count data based on poisson or...
Count: Sample of Count Data
Hybrid.Tree: Do hybrid-hierarchical clustering for RNA-seq data
KmeansPlus.RNASeq: Initialize the cluster centroids by a model-based Kmeans++...
MBCluster.Seq.Internal: Internal function for MBCluster.Seq package
plotHybrid.Tree: Plot the tree structure of the hybrid-hierarchical clustering...
RNASeq.Data: Standardize RNASeq Data for Clustering

Functions

Cluster.RNASeq Man page Source code
Count Man page
Hybrid.Tree Man page Source code
Hybrid.Tree.Microarray Man page Source code
KmeansPlus.RNASeq Man page Source code
MBCluster.Seq.Internal Man page Source code
MI.1 Man page Source code
MI.2 Man page Source code
MI.Cluster.Annotation Man page Source code
MI.score Source code
MI.score.one Man page Source code
NMI.score Man page Source code
RNASeq.Data Man page Source code
cl.mb Man page Source code
cl.mb.est.MC Man page Source code
cl.mb.est.P Man page Source code
cl.mb.est.mc Source code
cl.nb.est.c Man page Source code
cl.nb.est.m Man page Source code
cl.nb.est.mc Man page Source code
cl.ps.est.mc Man page Source code
dst.KL Man page Source code
dst.Ward Source code
dst.euclidean.pair Man page Source code
dst.maximum.pair Man page Source code
dst.pairs Man page Source code
dst.pearson.pair Source code
dst2center.pairs Man page Source code
est.nb.mu.mle.one Man page Source code
est.nb.v.QL Man page Source code
est.nb.v.QL.one Source code
in.tree Man page Source code
leaf.color Man page Source code
lglk.cluster Man page Source code
lglk.cluster.one Man page Source code
lglk.nb Man page Source code
lglk.nb.1c Source code
lglk.nb.c Man page Source code
lglk.ps Man page Source code
lglk.ps.1c Man page Source code
lglk.ps.c Man page Source code
loc.node Man page Source code
maxRow Man page Source code
meanCol Source code
meanRow Man page Source code
minRow Man page Source code
move.two Man page Source code
plotHybrid.Tree Man page Source code
plotbr Man page Source code
sortNode Man page Source code
sumCol Man page Source code
sumRow Man page Source code
tree.K Man page Source code

Files

data
data/Count.RData
NAMESPACE
man
man/KmeansPlus.RNASeq.Rd
man/plotHybrid.Tree.Rd
man/RNASeq.Data.Rd
man/Cluster.RNASeq.Rd
man/Count.Rd
man/Hybrid.Tree.Rd
man/MBCluster.Seq.Internal.Rd
DESCRIPTION
MD5
R
R/Tree.r
R/Output.r
R/KmeansPlus.r
R/MBCluster.Seq.Internal.r
R/HybridTree-KM.r
R/Cluster.r
R/Distance.r
R/Score.r
R/Math.r
R/LGLK.r
R/tree-K.r
R/Estimation.r
MBCluster.Seq documentation built on May 19, 2017, 10:24 p.m.