Problem with fgenesh protein IDs

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Problem with fgenesh protein IDs

Alisa Postma
Good afternoon

I am having problems with my all.maker.proteins.fasta file.

I ran maker with ab initio gene predictions from augustus and genemark and I added my fgenesh gff file to the pred_gff option in the ctl file.

However, my maker protein fasta file does not give the fgenesh proteins IDs similar to that for augustus and genemark. 

For example: 

>FGENESH protein AED:0.06 eAED:0.06 QI:0|0|0|1|1|1|3|0|433

vs.

>maker-scaffold74-augustus-gene-0.179-mRNA-1 protein AED:0.07 eAED:0.07 QI:123|1|1|1|1|1|5|793|326

I would appreciate any advice on this matter.

Kind regards

Alisa


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Re: Problem with fgenesh protein IDs

Carson Holt-2
The issue is probably with the format of your GFF3. I can take a look if you want.

—Carson


On Feb 5, 2017, at 6:15 AM, Alisa Postma <[hidden email]> wrote:

Good afternoon

I am having problems with my all.maker.proteins.fasta file.

I ran maker with ab initio gene predictions from augustus and genemark and I added my fgenesh gff file to the pred_gff option in the ctl file.

However, my maker protein fasta file does not give the fgenesh proteins IDs similar to that for augustus and genemark. 

For example: 

>FGENESH protein AED:0.06 eAED:0.06 QI:0|0|0|1|1|1|3|0|433

vs.


>maker-scaffold74-augustus-gene-0.179-mRNA-1 protein AED:0.07 eAED:0.07 QI:123|1|1|1|1|1|5|793|326

I would appreciate any advice on this matter.

Kind regards

Alisa

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[hidden email]
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