Question: What Programs Are There For Transcriptome Assembly?
3
gravatar for Panos
7.9 years ago by
Panos1.7k
Geneva, Switzerland
Panos1.7k wrote:

I know about the Trinity package which is good for de novo reconstruction but is there anything else?

What about programs that do mapping of RNA seq data against a reference genome?

assembly rna transcriptome • 4.6k views
ADD COMMENTlink written 7.9 years ago by Panos1.7k
10
gravatar for Mikael Huss
7.9 years ago by
Mikael Huss4.6k
Stockholm
Mikael Huss4.6k wrote:

Transcriptome assembly software can (as you suggest in your question) be divided into de novo assemblers and reference-guided assemblers.

For de novo assembly, there is e g:

and probably many others.

For reference-guided assembly (or "transcriptome reconstruction" as the developers of Scripture call it) there is e g:

ADD COMMENTlink written 7.9 years ago by Mikael Huss4.6k
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