pyGPCCA - python GPCCA: Generalized Perron Cluster Cluster Analysis package to coarse-grain reversible and non-reversible Markov state models.
☆30Feb 17, 2026Updated 7 months ago
Alternatives and similar repositories for pyGPCCA
Users that are interested in pyGPCCA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Winter is coming...☆14Jan 23, 2019Updated 7 years ago
- Helper function for Markov State Models☆11Jun 25, 2024Updated 2 years ago
- A python framework to run adaptive Markov state model (MSM) simulation on HPC resources☆17Aug 1, 2025Updated last year
- Graphical modelling with time series data using an ODE model☆12Mar 28, 2022Updated 4 years ago
- Combines FRESEAN mode analysis of a protein (based on a CG representation) with enhanced sampling using metadynamics☆17May 7, 2026Updated 4 months ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- 🦜 DISCOTRESS 🦜 is a software package to simulate and analyse the dynamics on arbitrary Markov chains☆27Jul 29, 2021Updated 5 years ago
- IPython API to visualize MD-trajectories along projected trajectories inside a Jupyter notebook☆43Feb 14, 2019Updated 7 years ago
- ☆15Jun 27, 2025Updated last year
- All your Jupyter kernels, on all your machines, in one place.☆21Aug 2, 2024Updated 2 years ago
- ☆14Jul 28, 2023Updated 3 years ago
- Automatically annotate cell types, consistently across samples.☆28Updated this week
- Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments☆19Aug 12, 2025Updated last year
- physics-informed neural network based method for solving single-cell population dynamics☆17Updated this week
- Clustering by fast search and find of density peaks☆63Updated this week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- This file includes the code I've written for the course Numerical Method in finance, Stochastic Calculus in Spring 2020.☆12May 13, 2020Updated 6 years ago
- The pytram package is deprecated and no longer supported. We recommend to switch to PyEMMA☆10May 25, 2016Updated 10 years ago
- Tutorials for Squidpy☆35Jul 10, 2026Updated 2 months ago
- Web application demonstrating 3D modeling of spatial transcriptomics☆24Dec 9, 2024Updated last year
- ☆32Feb 24, 2022Updated 4 years ago
- Introductory QMC teaching material for Python☆13Jun 8, 2016Updated 10 years ago
- Minibatch loading for on-disk anndata files, co-developed by Lamin Labs and scverse☆68Updated this week
- A Toolkit for Single Cell Spatiotemporal Dynamical Generative Modeling☆18Jun 30, 2026Updated 2 months ago
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆19Sep 19, 2025Updated last year
- 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.
- ☆11Apr 8, 2022Updated 4 years ago
- mdciao: Accessible Analysis and Visualization of Molecular Dynamics Simulation Data☆42Jun 19, 2026Updated 3 months ago
- GP Sinkhorn Implementation, paper: https://www.mdpi.com/1099-4300/23/9/1134☆23May 1, 2022Updated 4 years ago
- CellRank: dynamics from multi-view single-cell data☆456Updated this week
- Mitochondrial Alteration Enrichment and Genome Analysis Toolkit☆24Jan 16, 2024Updated 2 years ago
- DeepRUOTv2 (Dynamical Optimal Transport Tools)☆23Dec 10, 2025Updated 9 months ago
- Multi-omic single-cell optimal transport tools☆216Updated this week
- Correlation-based feature selection of Molecular Dynamics simulations☆29Aug 18, 2026Updated last month
- [NeurIPS 2025] Implementation for the paper "Modeling Microenvironment Trajectories on Spatial Transcriptomics with NicheFlow"☆30Nov 4, 2025Updated 10 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Tutorials for non-Markovian dynamic models (qMSM and IGME) to study protein dynamics.☆27Aug 15, 2024Updated 2 years ago
- Code for scKINETICS (ISMB 2023)☆22Oct 23, 2023Updated 2 years ago
- Implementation of multiplex Leiden for analysis of spatial omics data☆22Jul 7, 2026Updated 2 months ago
- Read fcs files.☆11Nov 13, 2025Updated 10 months ago
- Instant search for Sphinx☆14Apr 5, 2023Updated 3 years ago
- Global Waddington-OT☆23Mar 25, 2025Updated last year
- Official implementation of Neuronal Time-Invariant Representations (NeuPRINT), NeurIPS 2023☆10Mar 10, 2026Updated 6 months ago