Converting gff hints to genbank format for augustus training

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4.8 years ago

praasu ▴ 40

Hi,

I am trying to convert gff hints to genebank for augustus training using gff2gbSmallDNA.pl script. This script comes with augustus software.

when I run gff2gbSmallDNA.pl, it finishes without any error and doesn't give any output.

gff-file : I have list of intron coordinates gff

example :

contig100067 b2h intron 730 761 0 . . grp=TRINITY_DN11987_c1_g42_i1;pri=4;src=E contig100067 b2h intron 1773 1807 0 . . grp=TRINITY_DN11987_c1_g42_i1;pri=4;src=E

seq-file: list of contig in fasta

I don't know how to go about it. Any comment/suggestion is welcome.

Thank you,

augustus dna-seq genome annotation • 1.5k views

ADD COMMENT • link updated 4.3 years ago by marcos.a.godoy.f ▴ 10 • written 4.8 years ago by praasu ▴ 40

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I have the same problem

did you solve it?

ADD REPLY • link 4.3 years ago by marcos.a.godoy.f ▴ 10

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Unfortunately, I couldn't not figure out yet.

ADD REPLY • link 4.3 years ago by praasu ▴ 40

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