bioinformatics 4 protein 3 alignment 2 biology 2 protein-structure 2 multiple-sequence-alignment 2 prediction 2 structure 2 rna 2 rna-structure-prediction 2 protein-complexes 1 structural-biology 1 single-sequence 1 secondary-structure-prediction 1 secondary-structure 1 rna-structure 1 rna-secondary-structure-prediction 1 rna-secondary-structure 1 pseudoknot 1 prediction-algorithm 1 biological-data-analysis 1 3d-structure 1 evolutionary 1 couplings 1 analysis 1 rna-folding 1 folding 1 dna-structure-prediction 1 dna-folding 1 dna 1 substitutions 1 score-matrix 1 profiling 1 amino-acids 1 sequence-alignment 1 proteins 1 materials-science 1 airss 1 artificial intelligence 1 benchmarking 1 deep learning 1 molecular docking 1 protein-ligand docking 1 protein-ligand interaction 1 protein-ligand pose prediction 1 protein-ligand pose refinement 1 protein-ligand scoring 1 protein-ligand structure prediction 1 benchmark 1 computational-biology 1 computational-chemistry 1 deep-learning 1 machine-learning 1 molecular-docking 1 prospr 1 toolbox 1 python 1 c++ 1 extension 1 pypi 1 package 1 computational-science 1 cpp 1 datasets 1 high-performance-computing 1 protein-folding 1 protein-structure-prediction 1 2d 1 bioinformatics-tool 1