Question: rna seq single ended -Information on Rseqc report
0
gravatar for ASid
16 months ago by
ASid10
USA
ASid10 wrote:

I am newbie for ngs data analysis and so my questions would be very naive. With a lot of struugle I could use infer_experiment.py of rseqc to infer the stranded ness of the single ended publicly availaible dataset data that I was using. The output is displayed as follows:

This is SingleEnd Data Fraction of reads failed to determine:0.0198 
Fraction of reads explained by "++,--": 0.4819 
Fraction of reads explained by "+-,-+": 0.4982

So can anybody help me in interpreting it that it is stranded or unstranded and how we would guess that? 2. I use hisat2 for alignment and there was an option about strandedness and I used unstranded so it should be fine righht ?

rseqc rna seq standedness • 444 views
ADD COMMENTlink modified 16 months ago by lshepard400 • written 16 months ago by ASid10
0
gravatar for lshepard
16 months ago by
lshepard400
United States
lshepard400 wrote:

This is unstranded RNAseq. You can tell by the almost equal distribution of reads explained by forward and reverse output.

ADD COMMENTlink written 16 months ago by lshepard400
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 885 users visited in the last hour