Closed MrbrilliantLL closed 1 month ago
Hi @MrbrilliantLL ,
Currently, HiTE can only output all types of transposons, with different types of transposons being saved to separate files. For example, LTRs are found in the confident_ltr_cut.fa.cons
file, TIRs in the confident_tir.fa
file, and all types of transposons in the confident_TE.cons.fa
file.
Thank you for your suggestion. We plan to implement a "Divide and conquer" feature similar to EDTA in the next update.
Best , Kang
Thanks for your timely response! Looking forward to the next version !!!
Hi @MrbrilliantLL,
I just submitted a new commit. HiTE now supports the --te_type
parameter to retrieve specific types of TE output, including ltr
, tir
, helitron
, non-ltr
, and all
. I hope this is helpful for you. Note: Currently, this feature is only available in the Conda version of HiTE. The Singularity and Docker images will be updated with the next major release.
I will close this issue for now, but feel free to reopen it if you encounter any further problems.
Best regards,
Kang
Got it, thanks again for your help!
Hi! Thanks for the excellent tools!
How can I get the annotation of specified TE type (e.g. LTR or TIR)? Like the "Divide and conquer" part in EDTA pipeline. Many thanks!