Question: Problems with Exonerate output
0
gravatar for lumramabaja
3.6 years ago by
lumramabaja10
European Union
lumramabaja10 wrote:

I am a first year bioinformatics bachelor student and I am using exonerate for the first time, however I am facing some difficulties with its output. All I am receiving is  "-- completed exonerate analysis", without any error.

The code I am using is:

exonerate  --model protein2genome --showalignment \
--query protein.fasta \
--target genome.fasta

Can anybody inform me how to get the actual output?

 

 

 

 

 

ADD COMMENTlink modified 3.3 years ago by Prakki Rama2.1k • written 3.6 years ago by lumramabaja10
0
gravatar for zoo741
3.3 years ago by
zoo74170
United States
zoo74170 wrote:

You can get the output by adding ">output.file.name" to your command. 

ADD COMMENTlink written 3.3 years ago by zoo74170
0
gravatar for Prakki Rama
3.3 years ago by
Prakki Rama2.1k
Singapore
Prakki Rama2.1k wrote:

Try this:

exonerate --model protein2genome queryProtein.fasta Genome.fasta --showcigar no --showvulgar no --bestn 1 --showquerygff no >>output.e2g.out
ADD COMMENTlink modified 3.3 years ago • written 3.3 years ago by Prakki Rama2.1k
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