XBSeq (version 1.2.2)

dispEst: Function to access the dispersion estimation for each gene

Description

The dispersion estimated for each gene are stored as a data.frame after user called estimateSCV

Usage

dispEst(object, varname = NA)
dispEst(object, varname = NA) <- value

Arguments

object

XBSeqDataSet object

varname

variable name of dispersion estimates

value

The dispersion estimates for each gene

Value

A data.frame which contains the dispersion estimates for each gene

References

H. I. Chen, Y. Liu, Y. Zou, Z. Lai, D. Sarkar, Y. Huang, et al., "Differential expression analysis of RNA sequencing data by incorporating non-exonic mapped reads," BMC Genomics, vol. 16 Suppl 7, p. S14, Jun 11 2015.

See Also

estimateSCV, dispTable, XBSeqDataSet

Examples

   conditions <- factor(c(rep('C1', 3), rep('C2', 3)))
   data(ExampleData)
   XB <- XBSeqDataSet(Observed, Background, conditions)
   XB <- estimateRealCount(XB)
   XB <- estimateSizeFactors(XB)
   XB <- estimateSCV(XB, fitType='local')
   str(dispEst(XB))