I’m looking for a workflow to identify and extract new transcrits from RNASeq data in Galaxy.
What I did up to now was a genome guided transcriptome assembly
- Alignment with
StringTiewith a Reference Annotation (-G option) with an anotation made by AUGUSTUS tool as Reference Annotation
nowI have a .GTF file but I want to extract fasta sequence to obtain a MultiFASTA file containing protein sequences of ma transcriptom containing all the alternative transcripts.
It would be great If someone knew how to proceed to get this fasta file!
Have a nice day,