Trainable PyTorch framework for developing protein, RNA and complex models.

gRNAde: Geometric Deep Learning for 3D RNA inverse design

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

🔧rna-tools: a toolbox to analyze sequences, structures and simulations of RNA (and more) used by RNA CASP, RNA PUZZLES, and me ;-) docs @ http://rna-tools.rtfd.io web @ http://rna-tools.online

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

Analyse Nucleic Acids Structure and Simulations with baRNAba

CryoREAD: a computational tool using deep learning to automatically build full DNA/RNA atomic structure from cryo-EM map.

A platform to do RNA science

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

Python snippets for PyMOL to be run in Jupyterlab via the jupyterlab-snippets-multimenus extension.

Software for predicting translation initiation rates in bacteria

TISIGNER: Unleash the power of synthetic biology

Evaluating RNA structure prediction using diverse thermodynamic prediction tasks and high-throughput datasets.

Script to facilitate the making of horizontal scripts

RNA 3D structure prediction using multiple sequence alignment information docs @ http://EvoClustRNA.rtfd.io

pdb-mode is an emacs-lisp minor mode for Emacs to perform a number of useful editing functions on Protein DataBank (PDB) formatted files. XEmacs and/or GNU Emacs are available for most computing platforms.

Python implementation of Nussinov RNA folding algorithm and recursive backtrack.

Curated structures submitted to the RNA-Puzzles experiment. Download as a zip file https://github.com/mmagnus/RNA-Puzzles-submission/archive/master.zip

RNAblueprint library for uniform sampling of RNA sequences given structural and sequence constraints

CONTRAfold-SE - Learning RNA secondary structure (only) from structure probing data