Originally posted by GenoMax
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You missed it. please, see it after 3rd bam file I haven't given any comma. And it is separated with space too. -
No. That is not correct.
-L has to be a comma separated list of condition labels.
-L cond1,cond2 (e.g. -L Control,Mutant)
Your list of bam files (comma delimited names no spaces, then two conditions separated by a space) will be. e.g. cond1.bam1,cond1.bam2,cond1.bam3 (space here) cond2.bam1,cond2.bam2,cond2.bam3Last edited by GenoMax; 05-05-2015, 03:16 AM.Leave a comment:
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cuffdiff for groups
I want run cuffdiff for two groups. each has 3 samples. Is the below code right?
cuffdiff -o diff_out -b ../genome/ce10.fa -p 2 -L em,la -u merged_asm/merged.gtf cond1.bam1,cond1.bam2,cond1.bam3 cond1.bam1,cond1.bam2,cond1.bam3Last edited by bvk; 05-05-2015, 05:33 AM.
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