I am learning
goseq and I reached the point to calculate pwf. However it gives a warning and two plots that I have a hard time understanding them. So I have three questions:
1. What does the warning mean?
> gene_pwf=nullp(deGenes, bias.data=new_lengthData) Warning message: In pcls(G) : initial point very close to some inequality constraints
2. What does the plot out of nullp means? What shall I interpret from it? It looks very different from the one in manual.
3. What is the plot out of plot(pwf)? The plot's style is very new to me with those DEgenes, bias.data and pwf rectangles and the axis having no titles!!! what is it saying?