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Old 04-19-2011, 12:46 PM   #1
arrchi
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Location: ma

Join Date: Mar 2011
Posts: 46
Default cufflink -G option give 0 FPKM

cufflinks version: 1.2
code: cufflinks -o test3 -G Homo_sapiens.GRCh37.55.gtf accepted_hits.sam

And the output is like this:


gene_id bundle_id chr left right FPKM FPKM_conf_lo FPKM_conf_hi status
ENSG00000223972 31223 1 11873 14412 0 0 0 OK
ENSG00000227232 31223 1 14362 29370 0 0 0 OK
ENSG00000221311 31224 1 30365 30503 0 0 0 OK
ENSG00000237613 31225 1 34553 36081 0 0 0 OK
ENSG00000233004 31226 1 53048 54936 0 0 0 OK
ENSG00000177693 31227 1 69054 70108 0 0 0 OK
ENSG00000237683 31228 1 137282 139620 0 0 0 OK
ENSG00000222623 31229 1 157783 157887 0 0 0 OK
ENSG00000228463 31230 1 227614 267253 0 0 0 OK

Any one using the lasted cufflinks has the same issue? Thanks.
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