78 dependents
| Package | Description | Downloads/month |
|---|---|---|
| Spot pseudo-Imager on top of histology | 460K | |
| Spatial hotspot analysis | 433K | |
| SpaMV: An interpretable spatial multi-omics data integration and dimension reduc... | 8K | |
| 3K | ||
| Popari: a probabilistic graphical model for integrated spatial transcriptomics a... | 3K | |
| EnrichMap: Spatially-informed enrichment analysis for functional interpretation ... | 2K | |
| Python package for hexagonal binning of high-resolution spatial transcriptomic d... | 2K | |
| MCP server for spatial transcriptomics analysis through natural language interfa... | 2K | |
| A Python package for the identification, characterization and comparison of spat... | 2K | |
| A toolkit of spatial transcriptomic analysis. | 2K | |
| A Python package for the identification, characterization and comparison of spat... | 2K | |
| Consensus tissue region identification from multiplex molecular image data for d... | 1K | |
| Standardized spatial statistics for computational biology | 1K | |
| scCellFie infers metabolic activities from single-cell and spatial transcriptomi... | 1K | |
| A multi-file Python command line tool with commands qc, phenotype, and visualize... | 1K | |
| REVISE is a Python toolkit for reconstruct and analyse spatial transcriptomics (... | 962 | |
| Deep fusion of spatial transcriptomics and histology images for interpretable hi... | 841 | |
| Multi-scale feature analysis of spatial transcriptomics | 747 | |
| Spatial heterogeneity profiling of immune checkpoints in spatial transcriptomics | 721 | |
| Geometric Learning for Genome Data | 715 | |
| Multi-scale feature analysis of spatial transcriptomics | 656 | |
| Python package to find communication-driven intercellular flows from single-cell... | 644 | |
| A GUI for (imaging) mass cyometry analysis predominantly based on the popular St... | 644 | |
| Spatial Glycomics Analysis Toolkit | 613 | |
| scMalignantFinder is a Python package specially designed for analyzing cancer si... | 583 | |
| A single-cell analysis package to elucidate environmental factors controlling ce... | 537 | |
| A Python toolkit for quantitative and visual quality control of segmentation and... | 529 | |
| SPatial transcriptomics Analysis via Cell Embedding | 515 | |
| A spatial CCC tool to infer ligand-receptor interaction | 510 | |
| A package for spatial lipidomics data analysis including preprocessing, embeddin... | 501 | |
| A deep learning model for microenvironment estimation based on spatial transcrip... | 483 | |
| GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial System... | 475 | |
| Querying functional and structural niches on spatial transcriptomics data | 458 | |
| FineST: Fine-grained Spatial Transcriptomic | 426 | |
| Multidimensional data visualization for genomics | 417 | |
| Cell-cell communication prediction for ST data | 404 | |
| Interactive and integrated analysis of multiplexed tissue microarrays | 393 | |
| Spatial metabolic communication flow of cells. | 349 | |
| Fast and accurate cell segmentation for single-molecule spatial omics (Stereo-se... | 310 | |
| XClone: Inference of clonal Copy Number Alterations in single cells | 291 | |
| Interpretable super-resolution dimension reduction of spatial transcriptomics da... | 261 | |
| Plastinet is Python package for spatial transcriptomics. | 260 | |
| Spatial transcriptome analysis in python | 257 | |
| ncem. Learning cell communication from spatial graphs of cells. | 253 | |
| Comprehensive spatial transcriptomics analysis library with advanced segmentatio... | 237 | |
| Python package for gene set enrichment in spatial transcriptomic data | 229 | |
| Downstream analysis tool for spatial transcriptomics data, especially for data f... | 212 | |
| 212 | ||
| A toolbox for single cell topic models | 204 | |
| Spatial omics analysis tools for cell/gene clustering from a standard region | 192 |
