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AntetokounmJie opened this issue Apr 1, 2025 · 0 comments
Open

Question about panEDTA for different species #559

AntetokounmJie opened this issue Apr 1, 2025 · 0 comments

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@AntetokounmJie
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AntetokounmJie commented Apr 1, 2025

Hi Shujun,

Thanks for your continuous update for the EDTA package!
I used it at first time in 2020. It`s such a powerful tool to annotate the genomes.

And here I got two new questions:

  • Does panEDTA workflow work for different plant species? Just like use it to annotate TE among rice, maize, wheat together.
  • Does EDTA annotate the TE in other species properly? Such as animal and nematodes.

Also, I encounted a small issue when I install the newest version EDTA.
I can install it smoothly by conda.
But I failed in the test with test file wrapped in the package.
The error message just showed there was no genome.fa.mod.SINE.raw.fa.
I know it could be solved by "--force 1". But I think the genome.fa under the test dir should pass the test.
And I also test it with a the maize chr10 fasta. It still failed with same issue.
So, is this situation normal?

Best,
Jie

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