plotSCVEsts {XBSeq} | R Documentation |
Plot estimated SCV based on ggplot2
plotSCVEsts(XB, name = NULL, ymin, linecol = "red3", xlab = "mean of normalized counts", ylab = "SCV")
XB |
A XBSeqDataSet object |
name |
The name of the fit information. Only specify this if you choose |
ymin |
The limit of y axis |
linecol |
The linecolour of the SCV-mean trend |
xlab |
The lable of x axis |
ylab |
The lable of y axis |
Summary plot for the fitting and estimation of scv
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') plotSCVEsts(XB)