rna-secondary-structure

With RNArtist, you construct a collection of RNA structures that can be gathered into RNA families, projects,...

RiboNucleic Acid (RNA) Language Model

RNA Secondary Structure Prediction using an Ensemble of Two-dimensional Deep Neural Networks and Transfer Learning.

Visualise RNA secondary structure in consistent, reproducible and recognisable layouts

Improved RNA Secondary Secondary Structure Prediction using Evolutionary Profile, Mutational Coupling and Two-dimensional Transfer Learning

A Kotlin DSL to create and plot RNA 2D structures. The drawing engine behind RNArtist to be used from the command line.

RNA secondary structure prediction tool

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

A tutorial about RNA covary base pairs calling

Gibbs free energy evaluator for pseudoknotted RNA secondary structures

Plot nucleic acid secondary structures with Julia

Nucleic acid secondary structure prediction and analysis

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

BRIO: a web server for RNA sequence and structure motif scan (https://doi.org/10.1093/nar/gkab400)

Supporting data and scripts for "Relative Information Gain: Shannon entropy-based measure of the relative structural conservation in RNA alignments" (https://doi.org/10.1093/nargab/lqab007)

Explainable microRNA precursor triage. Paste a human DNA or RNA sequence or an hg38 locus, fold it with ViennaRNA in your browser, and get a ranked shortlist of pre-miRNA-like hairpins with the evidence behind every score.

Comparative analysis of RNA secondary structure across 12 eukaryotic mRNAs — Master's thesis, University of Vienna

RNA Secondary Structure Predictor | Interactive tool for the prediction and visualization of RNA secondary structures by maximizing the number of base pairs

A package for design of DNA/RNA temperature sensitive structures.

predTED — Fast approximate Tree Edit Distance (TED) prediction for RNA secondary structures using LightGBM. Up to 100x faster than exact TED computation.