This demo program takes an RNA sequence and applies a quadratic model in pursuit of the optimal stem configuration.

Implementation and visualization of dynamic programming based RNA secondary structure approximation

This is a dynamic programming implementation with an SDL visualization of conversion from mRNA to most optimal secondary structure (most number of base pairs).

Implementation of BPMax algorithm using AlphaZ Framework

RNA folding project in C++

Tools For Computational Biology

RNA Pseudoknotted Secondary Structure Prediction Using Strict Hierarchical Folding

RNA folding; implementation of the Zuker algorithm.

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

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

2 homeworks for "Algorithms in Structural Biology" Master course of Data Science and Information Technologies (DSIT)

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.

RNA Pseudoknotted Secondary Structure Prediction Using Relaxed Hierarchical Folding

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

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

RNA design tool that utilizes reinforcement learning