Tutorials for Squidpy
☆35Jun 19, 2026Updated last week
Alternatives and similar repositories for squidpy_notebooks
Users that are interested in squidpy_notebooks are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Fit generalized linear models in python.☆28Mar 6, 2023Updated 3 years ago
- Spatial Single Cell Analysis in Python☆578Jun 23, 2026Updated last week
- ☆22Aug 25, 2022Updated 3 years ago
- single cell analysis of treatment naive and treated human PDAC☆25May 27, 2022Updated 4 years ago
- ☆15Feb 12, 2026Updated 4 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- ☆13Apr 27, 2022Updated 4 years ago
- ☆29Sep 4, 2023Updated 2 years ago
- The R Bioconductor package for scMAGeCK.☆13May 25, 2026Updated last month
- Multimodal Data (.h5mu) implementation for Python☆123Jun 22, 2026Updated last week
- Learning cell communication from spatial graphs of cells☆118Jan 15, 2024Updated 2 years ago
- ☆17Mar 18, 2025Updated last year
- Collection of Sphinx extensions similar to (but more flexible than) numpydoc☆12Jun 23, 2026Updated last week
- data and model repository for single-cell data☆136Dec 21, 2023Updated 2 years ago
- Dynamical systems methods for RNA velocity analysis☆24May 19, 2021Updated 5 years ago
- 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.
- CellDrift: temporal perturbation effects for single cell data☆13Dec 3, 2022Updated 3 years ago
- Web application demonstrating 3D modeling of spatial transcriptomics☆24Dec 9, 2024Updated last year
- CellLENS: Cross-domain information fusion for enhanced cell population delineation in single-cell spatial-omics data☆35Jul 24, 2025Updated 11 months ago
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆70May 7, 2026Updated last month
- VEGA: VAE Enhanced by Gene Annotations☆18May 5, 2022Updated 4 years ago
- ☆44May 11, 2026Updated last month
- FastReseg for detection and correction of cell segmentation error based on spatial profile of transcripts.☆15Apr 30, 2026Updated 2 months ago
- A spatial genome aligner for analyzing multiplexed DNA-FISH imaging data.☆18Oct 10, 2023Updated 2 years ago
- Alignment of spatial genomics data using deep Gaussian processes☆31Dec 14, 2022Updated 3 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- BANKSY: Spatial Clustering Algorithm that Unifies Cell-Typing and Tissue Domain Segmentation. Python package for spatial transcriptomics …☆83Nov 13, 2025Updated 7 months ago
- Python client for the OmniPath web service☆62Feb 19, 2026Updated 4 months ago
- MCP server for single cell analysis☆12May 15, 2025Updated last year
- Computational pipeline to process EasySci-RNA data.☆23Jan 17, 2024Updated 2 years ago
- ☆13Jan 29, 2021Updated 5 years ago
- ☆12Mar 22, 2023Updated 3 years ago
- ☆13Aug 9, 2022Updated 3 years ago
- pyGPCCA - python GPCCA: Generalized Perron Cluster Cluster Analysis package to coarse-grain reversible and non-reversible Markov state mo…☆29Feb 17, 2026Updated 4 months ago
- Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…☆40May 6, 2022Updated 4 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.
- Single Cell Consensus Clustering with Speed☆24Dec 12, 2022Updated 3 years ago
- SuperCell for Cytometry data☆13Oct 14, 2025Updated 8 months ago
- Automatically annotate cell types, consistently across samples.☆24Jun 22, 2026Updated last week
- software to detect doublets☆98Dec 28, 2024Updated last year
- Single-cell perturbation analysis☆330Jun 24, 2026Updated last week
- Variant impact phenotyping using Perturb-seq☆10Apr 22, 2024Updated 2 years ago
- ☆15Feb 28, 2022Updated 4 years ago