theislab / spapros
Python package for Probe set selection for targeted spatial transcriptomics.
☆35Updated 4 months ago
Alternatives and similar repositories for spapros:
Users that are interested in spapros are comparing it to the libraries listed below
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆53Updated 2 weeks ago
- CAST package☆33Updated 5 months ago
- Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)☆21Updated this week
- Identification of spatial homogeneous regions☆20Updated 2 months ago
- Single-cell spatial proteomics analysis that makes you happy!☆25Updated this week
- Interoperability between SpatialData and the Xenium Explorer☆21Updated 8 months ago
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆25Updated 8 months ago
- Probabilistic cell segmentation for in situ spatial transcriptomics☆68Updated this week
- https://sparrow-pipeline.readthedocs.io/en/latest/☆26Updated last month
- Spatial direct messaging detected by bivariate Moran☆26Updated 2 months ago
- ☆26Updated 6 months ago
- Interactive applications of stlearn☆16Updated last year
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆33Updated this week
- ☆30Updated 11 months ago
- Analyzing cellular niches in spatial transcriptomics data☆29Updated 4 months ago
- ☆46Updated last week
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆27Updated 6 months ago
- Multi-resolution Variational Inference☆22Updated last week
- GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data☆48Updated 2 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆59Updated 10 months ago
- An R package for handling and analysing imaging mass cytometry data☆24Updated 5 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆77Updated last week
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆14Updated 3 years ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆48Updated this week
- ☆21Updated 2 years ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆60Updated this week
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆34Updated last month
- ☆13Updated 3 years ago
- A repository for benchmarking spatial deconvolution and mapping tools☆33Updated 2 months ago
- ☆16Updated this week