I run the cuffdiff for comparing two RNAseq samples as follows:
/usr/local/cufflinks/bin/cuffdiff /ucsc/dm3/genes.gtf /data/RNAseq/Cufflink/Wide-type_3/accepted_hits.bam /data/mutant/accepted_hits.bam
but in the output FPKM tracking files (cds.fpkm_tracking, genes.fpkm_tracking,isoforms.fpkm_tracking, tss_groups.fpkm_tracking) , there are no length and coverage value (column 8 and 9 are "-"). Is there something wrong or I omitted some parameters?
/usr/local/cufflinks/bin/cuffdiff /ucsc/dm3/genes.gtf /data/RNAseq/Cufflink/Wide-type_3/accepted_hits.bam /data/mutant/accepted_hits.bam
but in the output FPKM tracking files (cds.fpkm_tracking, genes.fpkm_tracking,isoforms.fpkm_tracking, tss_groups.fpkm_tracking) , there are no length and coverage value (column 8 and 9 are "-"). Is there something wrong or I omitted some parameters?
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