Integer programming based prediction of RNA secondary structures with pseudoknots
☆23Nov 30, 2025Updated 5 months ago
Alternatives and similar repositories for ipknot
Users that are interested in ipknot are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Parallel solution for local RNA secondary structure analysis☆12Feb 14, 2023Updated 3 years ago
- Eterna100-V2 benchmarking results and scripts☆13Oct 21, 2025Updated 6 months ago
- RNAView identifies base pairs that are formed in nucleic acid structures and classifies them according to the system of Leontis and Westh…☆20Jul 11, 2024Updated last year
- DyNoPy☆11Sep 5, 2024Updated last year
- RIblast is ultrafast RNA-RNA interaction prediction software based on seed-and-extension algorithm for comprehensive lncRNA interactome a…☆18May 9, 2023Updated 3 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Create force-directed graphs of RNA secondary structures.☆111Jun 6, 2020Updated 5 years ago
- Robust RNA structure refinement by a nucleobase-centric sampling algorithm coupled with a backbone rotameric and quantum-mechanical-energ…☆20Apr 3, 2021Updated 5 years ago
- ☆38Dec 15, 2023Updated 2 years ago
- Finds the optimal stem configuration of an RNA sequence using the LeapHybridCQMSampler.☆17Oct 31, 2023Updated 2 years ago
- bpRNA: Large-scale Annotation and Analysis of RNA Secondary Structure☆51Nov 23, 2023Updated 2 years ago
- Linear-Time Approximation of RNA Folding Partition Function and Base Pairing Probabilities☆35May 24, 2024Updated last year
- 🔧rna-tools: a toolbox to analyze sequences, structures and simulations of RNA (and more) used by RNA CASP, RNA PUZZLES, and me ;-) docs …☆186Apr 8, 2026Updated last month
- Python module to manipulate and visualize minimap2's cs tag☆11Jul 28, 2024Updated last year
- EXPRORER: Rational cosolvents set construction method for cosolvent molecular dynamics (CMD) with large-scale computation☆11Jul 28, 2022Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Simulation code for the prediction of RNA structures.☆13Jan 21, 2025Updated last year
- Analysis tool for NG-Capture-C, Tri-C and Tiled-C data☆10May 1, 2026Updated 2 weeks ago
- ☆54Nov 14, 2025Updated 6 months ago
- ☆52Jan 10, 2025Updated last year
- The ViennaRNA Package☆405Feb 24, 2026Updated 2 months ago
- ☆12May 3, 2025Updated last year
- Modelling RBP binding preferences to predict RPB binding sites☆11Aug 11, 2023Updated 2 years ago
- init commit☆16Oct 31, 2023Updated 2 years ago
- Deconvolution of RNA Alternative COnformations☆15Updated this week
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Program to calculate SDPs using Noisy intermediate scale quantum (NISQ) computers.☆12Feb 3, 2025Updated last year
- To be readable without enhancing english power.☆10Jul 22, 2020Updated 5 years ago
- SHAPE-guided RNA structural homology search☆12Aug 12, 2025Updated 9 months ago
- SVG collection of lab equipment☆13Nov 28, 2022Updated 3 years ago
- Inverted Repeats Finder: a program to analyze DNA and RNA sequences☆21Feb 21, 2025Updated last year
- SPOT-1D-LM: Reaching Alignment-profile-based Accuracy in Predicting Protein Secondary and Tertiary Structural Properties without Alignmen…☆11Feb 1, 2024Updated 2 years ago
- Deep transformer for predicting interchain residue-residue distances of protein complexes☆14Mar 19, 2024Updated 2 years ago
- Some tutorials to help people learn how to program the D-Wave quantum computer.☆13Oct 4, 2018Updated 7 years ago
- Demo of embedding words and documents into vector space☆18Aug 20, 2024Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Analyse Nucleic Acids Structure and Simulations with baRNAba☆54Mar 20, 2024Updated 2 years ago
- Soccer Trajectory Prediction Competition☆15Aug 28, 2025Updated 8 months ago
- These are the input files for MD simulation in Gromacs 5.0+☆12Apr 10, 2023Updated 3 years ago
- Restraintmaker is a tool intended to build Position or Distance restraints for Molecular Dynamics simulations (or any other simulation te…☆19Oct 27, 2022Updated 3 years ago
- State of the art software for RNA sequence design. The first to solve the Eterna benchmark!☆16Jul 17, 2024Updated last year
- CLI utility to post files and command output to discord☆16Oct 9, 2021Updated 4 years ago
- a pipeline to process data of PEM-seq or data similar, which is more comprehensive than superQ☆10Apr 28, 2026Updated 3 weeks ago