Question: Finding ORF from denovo transcriptome assembly .fasta file?
1
gravatar for Amk
3.3 years ago by
Amk120
Amk120 wrote:

Dear All,

Is there any tool out there to find the possible ORF in my denovo transcriptome assembly data, which is in fasta format. Also it is not an model organism. I came to see different tools which is available where we can only upload each contigs seperately to find ORF. It would be so easy if any of them accepts entire transcriptome data. If you know any tools which you have used or experimented, kindly share it. Thank you

transcriptome rna-seq orf • 1.4k views
ADD COMMENTlink modified 3.3 years ago by 5heikki8.3k • written 3.3 years ago by Amk120
2
gravatar for 5heikki
3.3 years ago by
5heikki8.3k
Finland
5heikki8.3k wrote:

You can use basically any protein-prediction tool, but also transcriptome specific algorithms, such as TransDecoder have been developed.

ADD COMMENTlink written 3.3 years ago by 5heikki8.3k

Dear 5heikki,

Thank you for the tool. It is awesome. Do you know any online servers for this job? It will be helpful.

Regards,
Amk

ADD REPLYlink written 3.3 years ago by Amk120
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