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oushujun / LTR_retriever

LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5813529/
GNU General Public License v3.0
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Can i use "-noanno" options to accelerate the whole process? #80

Closed AntetokounmJie closed 3 years ago

AntetokounmJie commented 3 years ago

Hi, shujun

I have finish a LAI process today. And i find there is a "Use -noanno if you don't want whole-genome LTR-RT annotation" message in log file. So i wanna know that can i use this option to do LAI analysis? Or this option is neccessary for LAI analysis?

Best regards

oushujun commented 3 years ago

Hello,

LAI needs whole-genome LTR annotation so if you use -noanno, there won't be LAI results at the end. But you can always run LAI independently given required inputs.

Best, Shujun

On Fri, Aug 14, 2020 at 11:14 PM Zea1nfO notifications@github.com wrote:

Hi, shujun

I have finish a LAI process today. And i find there is a "Use -noanno if you don't want whole-genome LTR-RT annotation" message in log file. So i wanna know that can i use this option to do LAI analysis? Or this option is neccessary for LAI analysis?

Best regards

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AntetokounmJie commented 3 years ago

@oushujun Thanks a lot. I got it. Best regards. :)