single-cell-data / SOMA
A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
☆74Updated 3 weeks ago
Alternatives and similar repositories for SOMA:
Users that are interested in SOMA are comparing it to the libraries listed below
- Python and R SOMA APIs using TileDB’s cloud-native format. Ideal for single-cell data at any scale.☆103Updated this week
- Slides and Notebooks for scverse 2024☆17Updated 6 months ago
- Probabilistic cell segmentation for in situ spatial transcriptomics☆68Updated this week
- CZ CELLxGENE Discover Census☆98Updated this week
- ☆42Updated last week
- Multimodal Data (.h5mu) implementation for Python☆93Updated last month
- ☆42Updated 5 months ago
- Code and documentation for the curation of cellxgene datasets☆43Updated this week
- Registries for biological entities, coupled to public ontologies.☆14Updated last week
- Genomic Features in Python from BioConductor's AnnotationHub☆21Updated last week
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆61Updated this week
- scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics☆52Updated 8 months ago
- AnnData interoperability in R☆75Updated this week
- Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with mill…☆100Updated last week
- Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…☆62Updated last year
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆17Updated this week
- Geometry-preserving random sampling☆81Updated 5 months ago
- Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)☆21Updated last week
- An R package for performing cell typing in SMI and other single cell data☆34Updated 4 months ago
- Multi-modal single cell analysis pipelines☆58Updated 2 weeks ago
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆27Updated 7 months ago
- ☆21Updated 2 years ago
- A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)☆12Updated 2 weeks ago
- R API and htmlwidget for Vitessce☆40Updated 6 months ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆36Updated 4 months ago
- ☆26Updated 6 months ago
- Analyzing cellular niches in spatial transcriptomics data☆29Updated 5 months ago
- Identification of spatial homogeneous regions☆20Updated 3 months ago
- Doublet detection in single-cell RNA-seq data.☆91Updated 2 months ago
- ☆57Updated this week