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qjiangzhao / TEtrimmer

TEtrimmer: a novel tool to automate manual curation of transposable elements
GNU General Public License v3.0
67 stars 2 forks source link

GUI suggestion #47

Open acontrerasg opened 1 month ago

acontrerasg commented 1 month ago

Hello,

I have been trying to streamline my manual curation process of TE libraries using your GUI which I think is a very nice idea.

However, when blasting the TE model against the genome, I can easily get 1.5k hits or more, which it is an issue when trying to generate a MSA alignment out of them.

When running TE trimmer, you have two default options--top_mas_lines 100 and --max_msa_lines 100 which sorts and subsets alignments.

I wonder if it will be possible to include also this same logic in the GUI when using Other_consensus_lib as main input.

Thanks!

qjiangzhao commented 1 month ago

Hi,

Thanks for your suggestion. I added --top_mas_lines 100 and --max_msa_lines 100 options. You can clone the updated version and try it.

Yours sincerely Jiangzhao

acontrerasg commented 1 month ago

Thanks a lot! Looking forward to it.