Trainable PyTorch framework for developing protein, RNA and complex models.
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Updated
Jan 20, 2024 - Python
Trainable PyTorch framework for developing protein, RNA and complex models.
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
gRNAde: Geometric Deep Learning for RNA Design
RNA Secondary Structure Prediction using an Ensemble of Two-dimensional Deep Neural Networks and Transfer Learning.
Analyse Nucleic Acids Structure and Simulations with baRNAba
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.
CryoREAD: a computational tool using deep learning to automatically build full DNA/RNA atomic structure from cryo-EM map.
Python snippets for PyMOL to be run in Jupyterlab via the jupyterlab-snippets-multimenus extension.
TISIGNER: Unleash the power of synthetic biology
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.
Evaluating RNA structure prediction using diverse thermodynamic prediction tasks and high-throughput datasets.
Software for predicting translation initiation rates in bacteria
Curated structures submitted to the RNA-Puzzles experiment. Download as a zip file https://github.com/mmagnus/RNA-Puzzles-submission/archive/master.zip
Python implementation of Nussinov RNA folding algorithm and recursive backtrack.
RNAblueprint library for uniform sampling of RNA sequences given structural and sequence constraints
CONTRAfold-SE - Learning RNA secondary structure (only) from structure probing data
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