plot

The indices or the transcript names of the
  transcripts that should be visualized as heatmap.

Size of the column labels, i.e. the
  samples.

cexSamples

Size of the row labels, i.e. the
  transcripts.

cexGenes

newColNames

Mark the samples, that do not belong to the
  major class by crosses ("crosses"), or boxes ("boxes").

type


  Plots a heatmap of the log read counts of the top ranked
  genes or of selected genes.


DEXUS identifies differentially expressed genes in RNA-Seq
data under all possible study designs such as studies without
replicates, without sample groups, and with unknown conditions.
DEXUS works also for known conditions, for example for RNA-Seq
data with two or multiple conditions. RNA-Seq read count data
can be provided both by the S4 class Count Data Set and by read
count matrices. Differentially expressed transcripts can be
visualized by heatmaps, in which unknown conditions,
replicates, and samples groups are also indicated. This
software is fast since the core algorithm is written in C. For
very large data sets, a parallel version of DEXUS is provided
in this package. DEXUS is a statistical model that is selected
in a Bayesian framework by an EM algorithm. DEXUS does not need
replicates to detect differentially expressed transcripts,
since the replicates (or conditions) are estimated by the EM
method for each transcript. The method provides an
informative/non-informative value to extract differentially
expressed transcripts at a desired significance level or power.

Guenter Klambauer

dexus

DEXUS - Identifying Differential Expression in RNA-Seq Studies
with Unknown Conditions or without Replicates

plot function

Plots a heatmap of the log read counts of the top ranked
  genes or of selected genes.

plot: Visualization of a result of the DEXUS algorithm.

Description

Arguments

Value

Examples