Teichlab / SpatialDELinks
Test genes for Spatial Variation
☆176Updated last year
Alternatives and similar repositories for SpatialDE
Users that are interested in SpatialDE are comparing it to the libraries listed below
Sorting:
- Detect doublets in single-cell RNA-seq data☆157Updated 4 years ago
- single cell Flux Estimation Analysis (scFEA) Try the below web server!☆130Updated last year
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆168Updated last year
- Episcanpy: Epigenomics Single Cell Analysis in Python☆147Updated 10 months ago
- Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.☆170Updated last week
- Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data☆144Updated 2 months ago
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆87Updated 7 months ago
- ☆131Updated last year
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆168Updated 6 months ago
- Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.☆141Updated 2 years ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆118Updated 5 months ago
- Convert between AnnData and SingleCellExperiment☆140Updated this week
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆157Updated last month
- EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.☆213Updated last year
- A Bayesian model for compositional single-cell data analysis☆176Updated 2 years ago
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆53Updated 3 years ago
- A scalable SCENIC workflow for single-cell gene regulatory network analysis☆166Updated 2 years ago
- Benchmarking computational single cell ATAC-seq methods☆184Updated 4 years ago
- ☆123Updated last year
- ☆83Updated last week
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆132Updated 7 months ago
- Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms☆175Updated last year
- trajectory inference☆105Updated 8 months ago
- In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes☆114Updated 8 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 7 months ago
- Differential expression analysis for single-cell RNA-seq data.☆204Updated 7 months ago
- Single-Cell Clustering Assessment Framework☆105Updated last year
- Context specific and dynamic gene regulatory network reconstruction and analysis☆122Updated 3 weeks ago
- R package to access DoRothEA's regulons☆150Updated last year
- AUCell: score single cells with gene regulatory networks☆169Updated last year