How to make Glimmer exon file for training
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6.4 years ago
amoltej ▴ 90

Hi 

I am trying to use GlimmerHMM for Eukaryotic gene annotation. to train glimmer for gene prediction we need to provide two file to trainglimmerHMM script. 1) Fasta file 2) exon file. 

in the manual they have given exon file should be as follows -

seq1 5 15
seq1 20 34
 
seq1 50 48
seq1 45 36
 
seq2 17 20

 

Can some body please tell me how to make this file? I have gff file where there are exon coordinates but dont know how to extract those.

Thank you in advance.

Amol

GlimmerHMM Gene Annotation Eukaryote • 2.1k views
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