panganqi / DLPAlign

Deep Learning based Progressive Alignment for Multiple Protein Sequences

DLPAlign

A Deep Learning based Progressive Alignment for Multiple Protein Sequences

Build

cd DLPAlign/
make

Training

cd Classifier/
python pair_classifier.py

or

jupyter-notebook pair_classifier.ipynb

Models

The models could be downloaded from https://drive.google.com/drive/folders/12oY3lmpLgYcUeWDhHw7KpmBn5TIPJBT9?usp=sharing. (Please put the unziped dir Classifierin the project home dir.)

The best model is pairs_classification_cnn_bilstm_final4.

Run

python DLPAlign.py <bench_dir>

Citation

@inproceedings{kuang2020dlpalign,
  title={DLPAlign: A Deep Learning based Progressive Alignment Method for Multiple Protein Sequences},
  author={Kuang, Mengmeng and Liu, Yong and Gao, Lufei},
  booktitle={CSBio'20: Proceedings of the Eleventh International Conference on Computational Systems-Biology and Bioinformatics},
  pages={83--92},
  year={2020}
}