an SRT simulator for simulating multiple spatial variability in spatial resolved transcriptomics and generating unbiased simulated SRT data
☆29Mar 11, 2025Updated last year
Alternatives and similar repositories for scCube
Users that are interested in scCube are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆17Mar 18, 2025Updated last year
- ☆31Aug 2, 2023Updated 2 years ago
- Code and data for the Nature Machine Intelligence paper "Knowledge graph-enhanced molecular contrastive learning with functional prompt".☆11May 16, 2023Updated 3 years ago
- Benchmarking clustering, alignment, and integration methods for spatial transcriptomics☆25Dec 19, 2024Updated last year
- conST: an interpretable multi-modal contrastive learning framework for spatial transcriptomics☆29Feb 16, 2024Updated 2 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- an integrative algorithm to distinguish spatially variable cell subclusters by reconstructing cells onto a pseudo space with spatial tran…☆23May 20, 2023Updated 3 years ago
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆27Jul 26, 2023Updated 2 years ago
- Morphology-Enhanced Spatial Transcriptome Analysis Integrator☆27Mar 16, 2025Updated last year
- ☆23Dec 8, 2023Updated 2 years ago
- ☆17Feb 20, 2025Updated last year
- ☆46May 31, 2024Updated last year
- ☆10Nov 29, 2022Updated 3 years ago
- Build contrasts for models defined with formulaic☆12Updated this week
- A computational method to rank and infer drug-responsive cell population towards in-silico drug perturbation using a target-perturbed gen…☆73Oct 16, 2025Updated 7 months ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- a computational framework to identify and characterize cell niches from spatial omics data at single-cell resolution☆53Aug 11, 2025Updated 9 months ago
- ☆18Jan 6, 2024Updated 2 years ago
- Optimal gating strategies for flow and mass cytometry.☆16Nov 5, 2025Updated 6 months ago
- An introduction to OME-Zarr for big bioimaging data☆26Updated this week
- A python package for Multiomics and Ecological Spatial Analysis (MESA)☆25Apr 8, 2025Updated last year
- ☆15Jun 27, 2025Updated 10 months ago
- ☆34Feb 25, 2025Updated last year
- ☆13Feb 15, 2024Updated 2 years ago
- ☆10Dec 17, 2025Updated 5 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- A computational tool for identification of 3D multi-modal spatial neighborhoods☆15Aug 1, 2025Updated 9 months ago
- A multi-dimensional spatial image data structure for scientific Python.☆44Aug 8, 2025Updated 9 months ago
- Repository for Nicheformer: a foundation model for single-cell and spatial omics☆163Nov 23, 2025Updated 5 months ago
- BANKSY: Spatial Clustering Algorithm that Unifies Cell-Typing and Tissue Domain Segmentation. Python package for spatial transcriptomics …☆79Nov 13, 2025Updated 6 months ago
- Unsupervised Instance Segmentation in Microscopy☆26Apr 3, 2024Updated 2 years ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆99Dec 11, 2023Updated 2 years ago
- ☆68Nov 6, 2024Updated last year
- Test genes for Spatial Variation☆185May 7, 2024Updated 2 years ago
- Tools for generating single-cell gene expression data☆34Jun 20, 2025Updated 11 months 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.
- ☆156Mar 19, 2024Updated 2 years ago
- Visualising data frames as funky heatmaps 📊, the Python implementation☆26Feb 6, 2025Updated last year
- ☆15Mar 6, 2025Updated last year
- Cell clustering for spatial transcriptomics data with graph neural network☆66Mar 31, 2023Updated 3 years ago
- ☆14Aug 9, 2017Updated 8 years ago
- Single-cell spatial omics analysis that makes you happy!☆62Updated this week
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆45Feb 19, 2026Updated 3 months ago