nucleic acid folding

Analyse Nucleic Acids Structure and Simulations with baRNAba

A lua package for designing DNA.

Julia interface to ViennaRNA for RNA structure prediction and analysis

Julia interface to the RNAstructure program suite for RNA structure prediction and analysis

Transformer + GAT for RNA chemical reactivity prediction| Stanford Ribonanza

Python implementation of Nussinov RNA folding algorithm and recursive backtrack.

Julia interface to LinearFold RNA structure prediction programs: LinearFold, LinearPartition, LinearSampling, and LinearTurboFold

RNA design tool that utilizes reinforcement learning

Nucleic acid secondary structure prediction and analysis

Coarse-grained molecular dynamics simulation with the Single-Interaction-Site RNA model

RNA Pseudoknotted Secondary Structure Prediction Using Relaxed Hierarchical Folding

GPU-powered interactive gene neighborhood visualization with deck.gl and React

RAFFT: RNA structure and folding dynamics predictions using the fast Fourier transform

RNA/DNA/PMO Pseudoknotted Secondary Structure Interaction Prediction Using Relaxed Hierarchical Folding

🧬 Zuker: An RNA secondary structure prediction algorithm

A tool to identify and extract the commonly used ITS folding motifs from a 16s-23s rRNA sequence.

Faster algorithms for RNA-folding using the Four-Russians method

MFE method for predicting the psuedoknotted secondary structures of RNA sequences.

Tools For Computational Biology