TEtrimmer

TEtrimmer is software designed to automate the manual curation of transposable elements (TEs). The input can be a TE library from de novo TE discovery tools, such as EDTA2 and RepeatModeler2, or a TE library from closely related species. For each input consensus sequence, TEtrimmer automatically performs BLAST, sequence extraction, extension, multiple sequence alignment (MSA), MSA clustering, MSA cleaning, TE boundary definition, and TE classification. TEtrimmer also provides a graphical user interface (GUI) to inspect and improve predicted TEs, which can assist achieving manual curation-level TE consensus libraries easily.

homepage: https://github.com/qjiangzhao/TEtrimmer

version	toolchain
1.4.0	foss/2023a

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