pytorch implementation for "RNA Secondary Structure Prediction By Learning Unrolled Algorithms"
☆123Apr 7, 2024Updated 2 years ago
Alternatives and similar repositories for e2efold
Users that are interested in e2efold are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆12Feb 13, 2019Updated 7 years ago
- ☆79Apr 22, 2025Updated last year
- RNA Secondary Structure Prediction using an Ensemble of Two-dimensional Deep Neural Networks and Transfer Learning.☆106May 23, 2025Updated last year
- Materials for "RNA secondary structure prediction with Convolutional Neural Networks" published in BMC Bioinformatics.☆14May 3, 2023Updated 3 years ago
- MXfold2: RNA secondary structure prediction using deep learning with thermodynamic integration☆163Updated this week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Secondary structure prediction of long non-coding RNA: review and experimental comparison of existing approaches, L.A. Bugnon, A.A. Edera…☆22Mar 17, 2024Updated 2 years ago
- Nature Methods: RNA foundation model (together with RhoFold)☆394May 27, 2025Updated last year
- The new source code of the LinearFold, linear-time prediction for RNA secondary structures☆201Apr 4, 2024Updated 2 years ago
- SSR: A Unifed Framework for Prediction in Secondary Structure of RNA. 整合了LinearFold, E2Efold, MXfold2算法，包含数据集，欢迎一键使用。☆10Dec 31, 2021Updated 4 years ago
- Single-sequence and Profile-based Prediction of RNA Solvent Accessibility Using Dilated Convolution Neural Network☆13Jun 22, 2022Updated 4 years ago
- Nucleic Acids Research 2024：RNA-MSM model is an unsupervised RNA language model based on multiple sequences that outputs both embedding a…☆71Jul 22, 2024Updated 2 years ago
- GCNfold: A novel lightweight model with valid extractors for RNA secondary structure prediction☆13Jul 23, 2023Updated 3 years ago
- RiboNucleic Acid (RNA) Language Model☆180Oct 8, 2026Updated 3 weeks ago
- Accurate Prediction of RNA Secondary Structure Including Pseudoknots through Solving Minimum-cost Flow with Learned Potential☆13Feb 4, 2024Updated 2 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- bpRNA: Large-scale Annotation and Analysis of RNA Secondary Structure☆52Nov 23, 2023Updated 2 years ago
- Improved RNA Secondary Secondary Structure Prediction using Evolutionary Profile, Mutational Coupling and Two-dimensional Transfer Learni…☆37Apr 3, 2021Updated 5 years ago
- Nature Methods: RhoFold+, Accurate RNA 3D structure prediction using a language model-based deep learning approach☆248May 29, 2025Updated last year
- A dataset for training and benchmarking deep learning models for RNA structure prediction☆72May 8, 2026Updated 5 months ago
- neuropeptide prediction☆15Sep 2, 2022Updated 4 years ago
- ARES implement in PyTorch☆18Feb 27, 2024Updated 2 years ago
- Nature Computational Science: RhoDesign is a structure-to-sequence model for RNA design.☆66Nov 8, 2024Updated last year
- structRFM: A fully open structure-guided RNA foundation model for robust structural and functional inference☆42Aug 29, 2026Updated 2 months ago
- BPfold: Deep generalizable prediction of RNA secondary structure via base pair motif energy.☆37May 27, 2026Updated 5 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- CLEAR: Self-supervised contrastive learning for integrative single-cell RNA-seq data analysis☆36Nov 30, 2022Updated 3 years ago
- Clustering tool for biomolecular structural ensembles and data in general.☆10Aug 24, 2020Updated 6 years ago
- End-to-end RNA Design using deep reinforcement learning☆73Sep 26, 2022Updated 4 years ago
- RNA Secondary Structure Prediction☆11Oct 26, 2023Updated 3 years ago
- Create force-directed graphs of RNA secondary structures.☆115Jun 6, 2020Updated 6 years ago
- RoseTTAFold2 protein/nucleic acid complex prediction☆383Jun 3, 2024Updated 2 years ago
- Linear-Time Approximation of RNA Folding Partition Function and Base Pairing Probabilities☆36May 24, 2024Updated 2 years ago
- ☆111Nov 28, 2023Updated 2 years ago
- MCTS-RNA is a computational tool for solving RNA inverse folding problem with controlling the GC-content of the RNA sequence very precise…☆13Apr 3, 2017Updated 9 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- GraphProt: modelling binding preferences of RNA-binding proteins☆21Jul 19, 2018Updated 8 years ago
- Eterna100-V2 benchmarking results and scripts☆15Updated this week
- gRNAde is a Generative AI framework for inverse design of 3D RNA structure and function☆322Dec 16, 2025Updated 10 months ago
- An end-to-end linear-time algorithm for structural alignment and conserved structure prediction of RNA homologs☆13Jun 28, 2024Updated 2 years ago
- PDNET: A fully open-source framework for deep learning protein real-valued distances☆36May 30, 2021Updated 5 years ago
- A fast and accurate RNA secondary structure, end-to-end approach prediction method.☆13Jan 2, 2025Updated last year
- Basic RNA 3D structure comparison metrics in RNA-Puzzles, including INF, DI and RMSD. It also includes `RNA_normalizer` tool in pdb_utils…☆27Dec 3, 2024Updated last year