hubmapconsortium / spatial-transcriptomics-pipeline
☆29Updated 6 months ago
Related projects ⓘ
Alternatives and complementary repositories for spatial-transcriptomics-pipeline
- Python package for Probe set selection for targeted spatial transcriptomics.☆28Updated this week
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆46Updated this week
- ☆23Updated last month
- Probabilistic cell segmentation for in situ spatial transcriptomics☆45Updated last week
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆24Updated 2 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆70Updated 2 weeks ago
- ☆28Updated last month
- Image Mass Cytometry analysis pipeline☆25Updated last month
- Identification of spatial homogeneous regions☆19Updated last month
- Tools to handle IMC data☆22Updated 2 years ago
- ☆43Updated last week
- ☆28Updated this week
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆50Updated 3 weeks ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆50Updated 5 months ago
- A probabilistic cell typing algorithm for spatial transcriptomics.☆23Updated this week
- ☆33Updated 7 months ago
- Spatially constrained color profiling for visualizing single-cell resolution spatial data☆23Updated 2 months ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆69Updated 11 months ago
- ☆38Updated last week
- Interoperability between SpatialData and the Xenium Explorer☆16Updated 3 months ago
- A scalable machine learning pipeline for probe specificity prediction.☆12Updated 10 months ago
- An R package for performing cell typing in SMI and other single cell data☆29Updated 3 months ago
- Interactive visualization of spatial omics data☆41Updated this week
- Spatial Single-Cell Analysis Toolkit☆74Updated this week
- Analyzing cellular niches in spatial transcriptomics data☆27Updated this week
- ☆14Updated 3 months ago
- ☆21Updated 4 years ago
- Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper☆23Updated 2 years ago
- Repository for storing prototype functionality implementations for the BKP☆18Updated this week
- Static plotting for spatialdata☆37Updated this week