pachterlab / concordexLinks
Identification of spatial homogeneous regions
☆21Updated 3 months ago
Alternatives and similar repositories for concordex
Users that are interested in concordex are comparing it to the libraries listed below
Sorting:
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆65Updated last month
- Python package for Probe set selection for targeted spatial transcriptomics.☆48Updated 2 months ago
- An R package for performing cell typing in SMI and other single cell data☆45Updated 7 months ago
- Multi-resolution Variational Inference☆22Updated last month
- Weakly supervised learning uncovers phenotypic signatures in single-cell data☆38Updated 3 weeks ago
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆29Updated last year
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆16Updated 3 months ago
- ☆24Updated last month
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆69Updated 2 months ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆56Updated 7 months ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆65Updated 6 months ago
- ☆22Updated 3 years ago
- Package for the analysis of Transcripts outside segmented cells in ST data☆24Updated this week
- RNA-velocity informed embeddings for visualizing cellular trajectories☆44Updated 3 years ago
- CAST package☆42Updated last year
- https://sparrow-pipeline.readthedocs.io/en/latest/☆33Updated 3 weeks ago
- Port of symphony algorithm of single-cell reference atlas mapping to Python☆33Updated last month
- A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA seq…☆66Updated 4 months ago
- Spatial direct messaging detected by bivariate Moran☆32Updated 5 months ago
- ☆44Updated 2 months ago
- From geospatial to spatial -omics☆100Updated last month
- This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…☆91Updated this week
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆41Updated 10 months ago
- Cell-type Relationship Analysis Workflow Done Across Distances☆39Updated last month
- A repository for benchmarking spatial deconvolution and mapping tools☆35Updated 8 months ago
- VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps☆47Updated last year
- Analyzing cellular niches in spatial transcriptomics data☆34Updated last year
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆45Updated 4 months ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆94Updated 7 months ago
- scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics☆57Updated last year