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nathanweeks / exonerate

A fork of exonerate: a generic tool for sequence alignment
GNU General Public License v3.0
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how to get protein file output #19

Closed U201412486 closed 4 years ago

U201412486 commented 4 years ago

Hi, How can I get my protein sequence after I run exonerate --model est2genomeand get gff3 file? Thanks, sun,

hyphaltip commented 4 years ago

Did you look at the —ryo documented options in thE man page.

Jason Stajich, PhD jasonstajich.phd@gmail.com On Dec 2, 2019, 7:10 PM -0800, U201412486 notifications@github.com, wrote:

Hi, How can I get my protein sequence after I run exonerate --model est2genomeand get gff3 file? Thanks, sun, — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or unsubscribe.

djinnome commented 4 years ago

Hi Sun,

Jason is right, the –ryo option allows you to roll your own gff output, but there is also a –showtargetgff option that I think will do what you want.

Sincerely,

Jeremy

From: Jason Stajich notifications@github.com Reply-To: nathanweeks/exonerate reply@reply.github.com Date: Monday, December 2, 2019 at 8:24 PM To: nathanweeks/exonerate exonerate@noreply.github.com Cc: Subscribed subscribed@noreply.github.com Subject: Re: [nathanweeks/exonerate] how to get protein file output (#19)

Did you look at the —ryo documented options in thE man page.

Jason Stajich, PhD jasonstajich.phd@gmail.com On Dec 2, 2019, 7:10 PM -0800, U201412486 notifications@github.com, wrote:

Hi, How can I get my protein sequence after I run exonerate --model est2genomeand get gff3 file? Thanks, sun, — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or unsubscribe.

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U201412486 commented 4 years ago

Thanks,It is my oversight.

nathanweeks commented 4 years ago

@hyphaltip & @djinnome: thanks for chiming in!

@U201412486 : I'll mark this issue as closed. Feel free to reopen if you still need assistance with this.