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Old 01-21-2013, 10:03 PM   #1
Richard.Y
Junior Member
 
Location: China

Join Date: Jan 2013
Posts: 6
Default about tophat and cufflinks(Need urgent)

(1)Do those reads mapping to genome corrdinate with the SQ header in the accepted_hits.bam
(2)why do many FPKM=0 in the cufflinks result, the command line I used
cufflinks -p 6 -g gencode10.gtf -N -b hg19.fa -u --library-type f
r-firststrand -o cufflinks/$i tophat/accepted_hits.bam"
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