Open mimidu opened 5 years ago
Hi,
Thank you for your hard work and clear instruction. I ran through the pipeline and got the final count table. But there is no annotated molecules:
It should not be since I have spike-ins.
I checked the bam files and it looks like I have hits actually, but it did not show up in the final table:
I suspect the problem is in the "Count molecules and merge into single file" step. I attached my GenePred file(modified from mirBase ff3 file).
mmu_2.txt
One thing i noticed is that my reads(around 20nt) are much shorter than yours. Any suggestions?
thanks and best,
Lily
Hi,
Thank you for your hard work and clear instruction. I ran through the pipeline and got the final count table. But there is no annotated molecules:
samples LIB4854636_SAM24358596
unannotatedmolc 121188
annotatedmolc 0
It should not be since I have spike-ins.
I checked the bam files and it looks like I have hits actually, but it did not show up in the final table:
I suspect the problem is in the "Count molecules and merge into single file" step. I attached my GenePred file(modified from mirBase ff3 file).
mmu_2.txt
One thing i noticed is that my reads(around 20nt) are much shorter than yours. Any suggestions?
thanks and best,
Lily