i have some problem related to cuffidiff output, i used this command for replicates:
cuffdiff -o diff_out -b <genome.fa> -p 10 -L CT,SS...
3 results in 0.0028 seconds.
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Cufflinks gtf files and fpkms
Hi!
I'm working with Cufflinks and I need help urgently!
According to the documentation of Cufflinks, the -g <reference_annotation.(gtf/gff)>... -
the gene fpkm and isoform fpkm are zero with Cufflink ???
I used cufflink (v2.0) to analyze my RNA-seq data.
It turned out there was problem with the gene fpkm and isoform fpkm.
The coverage, FPKM,...
