EDTA
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oushujun
Extensive de-novo TE Annotator
Hi Shujun, I'm trying to wrap up some work on the Hesperis matronalis genome and am having a problem with panEDTA - it keeps timing out. I've cranked up the...
Hello @oushujun, Just curious if using the CDS from multiple closely related species will effect the repeat annotation output? or Do you suggest removing the redundancy from he concatenated CDS...
Hello, I would like to know why don't we store the log files in this step? Thank you.
Hello, I am using EDTA+panEDTA to annotate genomes of 40 related species. I annotated each genome individually with EDTA v2.2.0 and generated a panEDTA library. Then for each genome, I...
Hello Shujun, I am running the latest EDTA from the master branch 41cd64f and I am getting an error with 1 out of 3 of my genomes. I have looked...
I have manually installed EDTA and all it's dependencies (and their dependencies) they all appear to work normally. However: EDTA.pl --repeatmasker /g/data/nm31/bin/RepeatMasker --check_dependencies ######################################################## ##### Extensive de-novo TE Annotator (EDTA)...
Dear Shujun, I used EDTA v2.2.1 to annotate a rice genome with command "perl ~/soft/EDTA/EDTA.pl --genome rice.fa --species Rice --curatedlib ~/soft/EDTA/database/rice7.0.0.liban --overwrite 0 --sensitive 1 -- anno 1 --threads 30"....
Hi Professor Ou: I would like to ask whether I can concatenate EDTA library and Repbase library, then run RepeatMasker manually? I was glad to find EDTA can significantly reduce...
When I run the test data, I meet some error. The log is following: Fri May 31 15:04:06 CST 2024 EDTA_raw: Check dependencies, prepare working directories. Fri May 31 15:04:07...
Hello, Professor Ou. Recently, I have been using EDTA to annotate transposable elements (TEs) in multiple animal genomes. However, while some genomes can generate the .mod.EDTA.TEanno.sum file, others are blank....
