fitInfo {XBSeq} | R Documentation |
Same method is adopted from DESeq to access the fit information from a XBSeqDataSet
fitInfo( object, name)
object |
a XBSeqDataSet |
name |
if |
A list containing fitting information for a XBSeqDataSet object:
perGeneSCVEsts |
SCV estimates for each gene, which has the same length as the number of rows as the assay elements in an object |
SCVFunc |
The function used to predict the fitted SCV |
fittedSCVEsts |
The fitted SCV estimates for each gene, which is of the same length as perGeneSCVEsts |
df |
Integer value indicating the degree of freedom |
sharingMode |
The sharing mode argument specified by the user |
Yuanhang Liu
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.
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(fitInfo(XB))