| Align-RUDDER: Learning From Few Demonstrations by Reward Redistribution | Sep 29, 2020 | General Reinforcement LearningMinecraft | CodeCode Available | 1 | 5 |
| Exploring evolution-aware & -free protein language models as protein function predictors | Jun 14, 2022 | Multiple Sequence AlignmentPrediction | CodeCode Available | 1 | 5 |
| MSAGPT: Neural Prompting Protein Structure Prediction via MSA Generative Pre-Training | Jun 8, 2024 | Few-Shot LearningMultiple Sequence Alignment | CodeCode Available | 1 | 5 |
| Accurate Protein Structure Prediction by Embeddings and Deep Learning Representations | Nov 9, 2019 | Deep LearningDrug Design | CodeCode Available | 1 | 5 |
| ApHMM: Accelerating Profile Hidden Markov Models for Fast and Energy-Efficient Genome Analysis | Jul 20, 2022 | CPUGPU | CodeCode Available | 1 | 5 |
| PEvoLM: Protein Sequence Evolutionary Information Language Model | Aug 16, 2023 | Language ModelingLanguage Modelling | CodeCode Available | 1 | 5 |
| Neural Distance Embeddings for Biological Sequences | Sep 20, 2021 | Multiple Sequence Alignment | CodeCode Available | 1 | 5 |
| Expert-guided protein language models enable accurate and blazingly fast fitness prediction | Nov 22, 2024 | CPUMultiple Sequence Alignment | CodeCode Available | 1 | 5 |
| PoET: A generative model of protein families as sequences-of-sequences | Jun 9, 2023 | Language ModellingMultiple Sequence Alignment | CodeCode Available | 1 | 5 |
| Enhancing the Protein Tertiary Structure Prediction by Multiple Sequence Alignment Generation | Jun 2, 2023 | Language ModelingLanguage Modelling | CodeCode Available | 1 | 5 |
| DLPAlign: A Deep Learning based Progressive Alignment Method for Multiple Protein Sequences | Nov 21, 2020 | Decision MakingMultiple Sequence Alignment | CodeCode Available | 0 | 5 |
| Ultra-large alignments using Phylogeny-aware Profiles | Apr 5, 2015 | BIG-bench Machine LearningMultiple Sequence Alignment | CodeCode Available | 0 | 5 |
| Convolutional ProteinUnetLM competitive with long short-term memory-based protein secondary structure predictors | Nov 30, 2022 | Multiple Sequence AlignmentPrediction | CodeCode Available | 0 | 5 |
| Phylogenetic automata, pruning, and multiple alignment | Mar 22, 2011 | Multiple Sequence Alignment | CodeCode Available | 0 | 5 |
| Optimizing scoring function of dynamic programming of pairwise profile alignment using derivative free neural network | Aug 30, 2017 | Multiple Sequence Alignment | CodeCode Available | 0 | 5 |
| ESM-NBR: fast and accurate nucleic acid-binding residue prediction via protein language model feature representation and multi-task learning | Dec 1, 2023 | Language ModelingLanguage Modelling | CodeCode Available | 0 | 5 |
| MNHN-Tree-Tools: a toolbox for tree inference using multi-scale clustering of a set of sequences | Jun 8, 2021 | Multiple Sequence Alignment | CodeCode Available | 0 | 5 |
| QuickProbs 2: towards rapid construction of high-quality alignments of large protein families | Aug 30, 2016 | Multiple Sequence Alignment | CodeCode Available | 0 | 5 |
| Dynamic Programming Algorithms for Discovery of Antibiotic Resistance in Microbial Genomes | Nov 29, 2023 | Multiple Sequence Alignment | —Unverified | 0 | 0 |
| Deep Time Warping for Multiple Time Series Alignment | Feb 22, 2025 | Dynamic Time WarpingMultiple Sequence Alignment | —Unverified | 0 | 0 |
| Identifying relevant positions in proteins by Critical Variable Selection | Jan 19, 2016 | Multiple Sequence AlignmentVariable Selection | —Unverified | 0 | 0 |
| CVTree for 16S rRNA: Constructing Taxonomy-Compatible All-Species Living Tree Effectively and Efficiently | May 12, 2025 | AllMultiple Sequence Alignment | —Unverified | 0 | 0 |
| A Novel Method for Comparative Analysis of DNA Sequences by Ramanujan-Fourier Transform | Mar 6, 2014 | ClusteringMultiple Sequence Alignment | —Unverified | 0 | 0 |
| Influence of Multiple Sequence Alignment Depth on Potts Statistical Models of Protein Covariation | Jan 19, 2019 | Multiple Sequence Alignment | —Unverified | 0 | 0 |
| Aligning 415 519 proteins in less than two hours on PC | Mar 22, 2016 | Multiple Sequence AlignmentVocal Bursts Valence Prediction | —Unverified | 0 | 0 |
