Python wrapper to design RNA molecules using RNAblueprint, RNARedPrint and for energy evaluations ViennaRNA, Hotknots, pKiss and Nupack.
☆22Sep 17, 2018Updated 7 years ago
Alternatives and similar repositories for RNAsketch
Users that are interested in RNAsketch are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- SMARTS: 'regular expressions' for chemical structures☆21Jun 21, 2018Updated 7 years ago
- ☆12Oct 7, 2020Updated 5 years ago
- Eterna100-V2 benchmarking results and scripts☆13Oct 21, 2025Updated 5 months ago
- Deep learning embedding for nucleotide sequences☆20Mar 12, 2026Updated last week
- To run metadynamics simulations using openMM (based on Peter Eastman's script)☆13Mar 18, 2019Updated 7 years ago
- Use machine learning to design codon-optimized DNA sequences for increased protein expression.☆16Sep 27, 2022Updated 3 years ago
- Multistrand nucleic acid kinetic simulator☆20Oct 28, 2025Updated 4 months ago
- With RNArtist, you construct a collection of RNA structures that can be gathered into RNA families, projects,...☆177Nov 24, 2023Updated 2 years ago
- Linear-Time Approximation of RNA Folding Partition Function and Base Pairing Probabilities☆34May 24, 2024Updated last year
- AnnapuRNA: a scoring function for predicting RNA-small molecule interactions.☆21Apr 5, 2024Updated last year
- Python interface for the RCSB search API.☆20Mar 20, 2024Updated 2 years ago
- python code for calculating the WHALES (Weighted Holistic Atom Localization and Entity Shape) molecular descriptors☆27Jul 22, 2021Updated 4 years ago
- Target prediction☆13May 8, 2020Updated 5 years ago
- A bayesian retrosynthesis algorithm☆14Dec 16, 2020Updated 5 years ago
- A neural based approach to the task of genetic codon optimization☆18Aug 17, 2020Updated 5 years ago
- Introductory tutorial on TPS, committor analysis, and (MS)TIS with OpenPathSampling☆19Dec 15, 2025Updated 3 months ago
- Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!☆27Mar 7, 2026Updated 2 weeks ago
- End-to-end RNA Design using deep reinforcement learning☆72Sep 26, 2022Updated 3 years ago
- PyMOL Plugin for displaying polar contacts☆18Mar 11, 2019Updated 7 years ago
- Import and run CWL workflows on DNAnexus (alpha)☆13Sep 12, 2018Updated 7 years ago
- ☆41Mar 18, 2025Updated last year
- A toolkit for predicting the binding mode of small molecules interacting with proteins based on interfacial rigidification, as assessed b…☆10Nov 22, 2016Updated 9 years ago
- Visualization of nucleotide alignment algorithms 🧬 DNA sequence as input, best aligning match as output.☆13Aug 11, 2020Updated 5 years ago
- Learning protein representation for rigid-body docking☆22Nov 2, 2019Updated 6 years ago
- Data for paper "Random Access in Large-Scale DNA Data Storage"☆13Jan 11, 2018Updated 8 years ago
- Explain a SMARTS using SmartsView (K. Schomburg and M. Rarey)☆17Oct 4, 2021Updated 4 years ago
- example demonstrating a free energy estimation starting from OFF and OpenMM☆12Oct 21, 2020Updated 5 years ago
- ☆17Jan 29, 2026Updated last month
- A Memetic Algorithm boosts accuracy and speed of all-atom protein-protein docking☆29Jul 5, 2025Updated 8 months ago
- PaNeV: an R package for a pathway-based network visualization☆10Aug 25, 2025Updated 7 months ago
- Using Rotamer Interaction Fields from RIFGen/Dock in python☆17May 2, 2021Updated 4 years ago
- Goslin is the Grammar on succinct lipid nomenclature.☆13Nov 20, 2025Updated 4 months ago
- Graph Neural Networks for Drug Efficacy Prediction☆11Sep 11, 2022Updated 3 years ago
- Implementation of Force2Vec method for ICDM 2020 paper titled "Force2Vec: Parallel force-directed graph embedding"☆14May 30, 2022Updated 3 years ago
- OpenSMOG is a Python library for performing molecular dynamics simulations using Structure-Based Models. OpenSMOG uses OpenMM.☆12Feb 20, 2026Updated last month
- LDPC codes for Illumina sequencing-based DNA storage☆11Dec 2, 2020Updated 5 years ago
- The new source code of the LinearFold, linear-time prediction for RNA secondary structures☆189Apr 4, 2024Updated last year
- Kinome-wide structural pocket similarity☆10Dec 26, 2022Updated 3 years ago
- TSCoDe is a systematical conformational embedder for small molecules. It helps computational chemists build transition states and binding…☆13Jan 6, 2025Updated last year