EEfinder is a tool/python package that automatizes several tasks related to identification of Endogenous Elements present on Eukaryotic Genomes.
EEfinder was developed and tested with BLAST 2.5.0 and DIAMOND 2.0.15, they are implemented on conda environments
git clone https://github.com/WallauBioinfo/EEfinder.git
cd EEfinder
conda env create -f env.yml
conda activate EEfinder
pip install .eefinder --version
#eefinder, version 1.1.1For more information, check EEfinder Wiki here
If you use EEfinder in your research, please cite https://www.sciencedirect.com/science/article/pii/S2001037024003325:
Dias, Y. J. M., Dezordi, F. Z., & Wallau, G. L. (2024). EEFinder: A general-purpose tool for identification of bacterial and viral endogenized elements in eukaryotic genomes. Computational and Structural Biotechnology Journal. https://doi.org/10.1016/j.csbj.2024.10.012