Rnits (version 1.6.2)

topData: Data of top genes/probes

Description

Extract expression data for top genes/probes

Usage

topData(object, id = NULL, fdr = NULL, top = 16, sort.by = "p-value")
"topData"(object, id = NULL, fdr = NULL, top = 16, sort.by = "p-value")

Arguments

object

Rnits object on which fit has been applied

id

Names of probes or genes

top

Display results for top N genes/probes. Default 50

fdr

Display results for genes/probes less than FDR cutoff (if provided). Overrides top argument

sort.by

Sort top results by either p-value or FDR

Value

A table of expression values of top genes/profiles

Examples

# load pre-compiled expressionSet object for Ronen and Botstein yeast  chemostat data
data(yeastchemostat)
rnitsobj = build.Rnits(yeastchemostat, logscale = TRUE, normmethod = 'Between')
## Not run: 
# # Fit model using gene-level summarization
# rnitsobj <- fit(rnitsobj, gene.level = TRUE, clusterallsamples = FALSE)
# 
# #Get data for top genes
# td <- topData(rnitsobj, FDR = 5)
# 
# ## End(Not run)