EDTA
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oushujun
Extensive de-novo TE Annotator
Hello！ In TEanno.gff3, TE_00000019 actually has multi-locus repeats on each chromosome, so do these TE_00000019 need to be merged and spliced again? Or do these transposons already contain the full...
Hi Shujun, I found a problem for EDTA to identify LTR-RT when an intact LTR-RT close with a solo LTR-RT that is from the same family. For example, the longer...
I found EDTA has a problem dealing with nested TEs. For example, here are part of my prediction, apparently, this is a nested area but EDTA named them both as...
I would like to appreciate for the best pipeline you developed so far! However, I was running EDTA on the plant genome which has a size of 3GB and EDTA...
Hi there, I have made a guide to annotate plant TEs and reports generation, using a modified version of EDTA (full lineage annotation) together with AnnoSINE and mgescan nonltr and...
'调用失败'
$ perl ../EDTA.pl --genome genome.fa --cds genome.cds.fa --curatedlib ../database/rice7.0.0.liban --exclude genome.exclude.bed --overwrite 1 --sensitive 1 --anno 1 --evaluate 1 --threads 10 > EDTA.test 2024年 04月 29日 星期一 16:53:03 CST EDTA_raw:...
Hi shujun! I have some genome ``mod.EDTA.TEanno.sum`` files that are empty, so I checked part of the EDTA process. I found that ``buildSummary.pl`` script at line 560 will terminate when...
Hi @oushujun, I get Total Length（bp） from TEanno.sum,but It is different from other software results, such as faSize,Can you tell me how EDTA calculates the length of a sequence？
Hi Shujun, Thank you very much for providing EDTA to the world.I have installed the latest EDTA v2.2.1 using conda and run the test file successfully. However, when I ran...
Dr. Shujun, Hi! I installed EDTA v2.2.1 by ran the commands "git clone https://github.com/oushujun/EDTA.git" and "mamba env create -f EDTA_2.2.x.yml". And I tested it with the following command “perl... /EDTA.pl...
