Question: Need help to do single denovo assembly with multiple RNA seq data
0
gravatar for ashokkumar.mb
23 months ago by
ashokkumar.mb0 wrote:

I have illumina RNA seq data from different tissues of one plant. Is it possible to do single assembly using all this RNA seq data from different tissues of one plant? Do I need to combine this libraries before assembly or is there any option in assembly tools itself?

Thank you

rna-seq assembly • 404 views
ADD COMMENTlink modified 23 months ago by kristoffer.vittingseerup3.4k • written 23 months ago by ashokkumar.mb0

Yes. Take a look at Trinity.

Depending on the amount of your data RAM requirements can be high but it is a well accepted option for eukaryotic transctiptome assembly.

ADD REPLYlink written 23 months ago by genomax91k

Hey thank you so much, Found command for that

ADD REPLYlink written 23 months ago by ashokkumar.mb0
1
gravatar for kristoffer.vittingseerup
23 months ago by
European Union
kristoffer.vittingseerup3.4k wrote:

If you have a refrence genome tools such as Cufflinks or StringTie will work better - I have a small section in my vignette describing this here.

ADD COMMENTlink written 23 months ago by kristoffer.vittingseerup3.4k
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: 1020 users visited in the last hour