We introduce a differentiable approach to phylogenetic tree construction, optimizing tree and ancestral sequences in its original representation itself, thus requiring no prior training data.
☆21Apr 2, 2026Updated 2 months ago
Alternatives and similar repositories for diff-evol-tree-search
Users that are interested in diff-evol-tree-search are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆10Jun 28, 2025Updated 11 months ago
- ☆11Apr 25, 2021Updated 5 years ago
- Python utilities for handling Rosetta output and PDB files☆16Sep 26, 2011Updated 14 years ago
- Scripts and data to run AbDesign as described in Tools for protein science 2021☆14Nov 4, 2020Updated 5 years ago
- ☆18Mar 13, 2024Updated 2 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- ☆20Oct 4, 2022Updated 3 years ago
- ☆30Apr 2, 2026Updated 2 months ago
- Learning Protein Constitutive Motifs from Sequence Data: RBM toolbox☆20Jan 30, 2019Updated 7 years ago
- ProteinFeatureAnalyzer extracts, analyzes and visualizes features from protein structures.☆14Mar 14, 2020Updated 6 years ago
- Code and data to reproduce analyses in Biswas et al. (2020) "Low-N protein engineering with data-efficient deep learning".☆62Apr 8, 2021Updated 5 years ago
- Using Rotamer Interaction Fields from RIFGen/Dock in python☆17May 2, 2021Updated 5 years ago
- ☆18Oct 30, 2023Updated 2 years ago
- Protein representation and design under a single training scheme☆24May 17, 2026Updated 3 weeks ago
- CADEE: Computer-Aided Directed Evolution of Enzymes☆18Nov 7, 2023Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆13Jul 14, 2023Updated 2 years ago
- Rotamer Interaction Field Python Libraries for Computational Protein Design☆14Feb 2, 2018Updated 8 years ago
- ☆38Dec 21, 2023Updated 2 years ago
- ☆16Jun 22, 2020Updated 5 years ago
- ☆15Mar 27, 2020Updated 6 years ago
- PiViewer: an open-source tool for automated detection and display of pi-pi interactions☆14Jun 6, 2018Updated 8 years ago
- A series of scripts that facilitate the prediction of protein structures in multiple conformations using AlphaFold2☆99Aug 29, 2023Updated 2 years ago
- ☆41Mar 25, 2026Updated 2 months ago
- Structure-Informed Protein Language Model☆38Feb 15, 2024Updated 2 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.
- ☆21Mar 27, 2021Updated 5 years ago
- bakerlab pymol scripts☆26Feb 6, 2020Updated 6 years ago
- Graphormer Based Protein Sequence Design☆26Feb 2, 2024Updated 2 years ago
- Code and Data for Generative modeling for AAV design☆10Nov 13, 2023Updated 2 years ago
- Data sharing for High-throughput Prediction of Changes in Protein Conformational Distributions with Subsampled AlphaFold2☆43May 15, 2024Updated 2 years ago
- Codebase of the paper "Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling" (ICLR 2024)☆85Apr 21, 2026Updated last month
- ☆51Aug 21, 2023Updated 2 years ago
- AlphaLink2: Integrating crosslinking MS data into Uni-Fold-Multimer☆68Aug 26, 2025Updated 9 months ago
- ☆16Dec 10, 2024Updated last year
- 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.
- Codebase for our preprint using trRosetta to design proteins with discontinuous functional sites, found here: https://www.biorxiv.org/con…☆16Oct 27, 2021Updated 4 years ago
- Predict multiple protein conformations using sequence clustering and AlphaFold2.☆187Oct 7, 2025Updated 8 months ago
- Sample and predict coarse grain 3D RNA structures☆10Feb 12, 2024Updated 2 years ago
- Ableton remote script to load your devices via clip triggers☆10Apr 12, 2020Updated 6 years ago
- [NeurIPS 2024] MSA generative pretraining for advancing protein structure prediction☆34Mar 18, 2025Updated last year
- Python interface to the GenoLogics LIMS server via its REST API.☆11Mar 30, 2022Updated 4 years ago
- ☆56Mar 12, 2026Updated 2 months ago