I've aligned my reads with HISAT2, then did cufflinks on the aligned read and cuffmerge, the next step of cuffdiff however failed, I tried running it twice and got the same error:
R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet" Copyright (C) 2014 The R Foundation for Statistical Computing Platform: x86_64-unknown-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under
Not sure whether I am doing something wrong or it is an actual error.
Any help is appreciated,