RNASeq

[m_elena_bioinfo]

Dear,
anyone could help me to "understand" the outputs of cufflinks?
How can I use these data and FPKM values to extract the differential gene expression and the different abundance of isoforms?

Moreover, where can I find a gtf annotation file for human to integrate in the run of cufflinks as -g parameter?

thanks a lot
ME

[mixter]

Hi,

There's a verbose description of each column under http://cufflinks.cbcb.umd.edu/manual...uffcomp_output

Also, in my experience, for a lot of technical questions and concerns the FAQ is helpful, http://cufflinks.cbcb.umd.edu/faq.html