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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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Best way to get LAI value per contig/scaffold #30

Closed shkao closed 5 years ago

shkao commented 5 years ago

Hi Shujun,

What would be the best way to get the LAI values for each contig/scaffold that you would recommend? Thanks!

oushujun commented 5 years ago

Hi Allen,

You may run with the whole genome and set a ridiculously large window size so that each contig is in only one window.

Thanks, Shujun

On Tue, Dec 4, 2018, 11:58 AM Allen Kao <notifications@github.com wrote:

Hi Shujun,

What would be the best way to get the LAI values for each contig/scaffold that you would recommend? Thanks!

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shkao commented 5 years ago

Thank you, Shujun. That was quick!