-
Dear author：
ATHILAfinder is a excellent pipeline to identify Athila transposons. However, it can not be run correctly. All dependencies i had downloaded and the version also based on your advice. Ca…
-
Hello, I apologize for the disturbance. Thank you for creating such excellent software. However, while using TEsorter, I found that it only annotates parts of proteins within domains. If I want to obt…
-
Dear Jiangzhao
I encountered this problem during manual management.
This is a TEAID of a modified multiple alignment of a LINE transposon. It looks OK. But when I run the cons step of TEtrimmer,…
-
Hello author
I used the LTR-retriever to extract the transposon of a species, assuming a GFF file named 1.fna.mod.ltr.gff3 was generated. Assume that the genome GFF file of the species is GCA_0097461…
-
Hi Yan,
Recently, I’ve been trying to use DeepTE_domain.py + DeepTE.py to perform detailed classification of transposon sequences. Could you please let me know how to obtain the supplementary files…
-
**Reported by davpabenwo on 2012-02-20 12:19 UTC**
To allow for the classification of a non-genomic coding/pseudogenic gene structure.
I guess these would have to be child terms of CDS and also child…
-
I would like to understand how the output results in transposon.possible.tsv are defined. What criteria are used to determine 'all possible transposon elements'?
-
@ValWood @kimrutherford
Hey guys,
I'll reply to your other messages shortly (sorry for being a bit tardy but it's not good time for me at the moment, I feel like am behind on everything). Here …
-
I'm interested in annotating autonomous vs non autonomous transposons. Is there a means to do that in TransposonUltimate - either in the output or intermediate files? Thanks!
-
```
-f/--families Repeat element/transposon categories to be used. These must be exact string match's to start of read name and are used to split reads into categories for analysis. Not specifying …