I am following this: https://support.bioconductor.org/p/61509/
After HTseq, Deseq2 cannot perform the (IP for B / IP for A) / (Input for B / Input for A). I did this by adding two different "Factors". The first with the RIPseq data (1st Factor level WT; 2nd Factor level KO) and the second the RNAseq data (1st Factor level WT; 2nd Factor level KO).
It gives the following error:
Fatal error: An undefined error occured, please check your intput carefully and contact your administrator.
Creating a generic function for 'nchar' from package 'base' in package 'S4Vectors'
*tmp*, value = value) :
I google it and it seems that it's something regarding with the input names. I changed them but still the same.
What do you think guys that I am doing wrong?