Nanostring-Biostats / InSituTypeLinks
An R package for performing cell typing in SMI and other single cell data
☆40Updated 4 months ago
Alternatives and similar repositories for InSituType
Users that are interested in InSituType are comparing it to the libraries listed below
Sorting:
- Cell-type Relationship Analysis Workflow Done Across Distances☆38Updated 3 months ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆55Updated 4 months ago
- ☆53Updated 2 years ago
- .h5mu files interface for Seurat☆31Updated last year
- A repository for benchmarking spatial deconvolution and mapping tools☆34Updated 4 months ago
- cell type specific, trait-associated gene regulation☆29Updated 6 months ago
- Port of symphony algorithm of single-cell reference atlas mapping to Python☆29Updated 3 weeks ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆45Updated 3 years ago
- Analyzing cellular niches in spatial transcriptomics data☆30Updated 10 months ago
- Stitch multiple Visium slides together☆16Updated last year
- Implements *CellAnnotator (aka *CAT/starCAT), annotating scRNA-Seq with predefined gene expression programs☆62Updated 2 weeks ago
- A toolset for analysis and visualisation of Spatial Transcriptomics datasets.☆18Updated 4 years ago
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆16Updated 2 weeks ago
- Hotspot cluster distance analysis in spatial transcriptomic data☆30Updated 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☆54Updated last year
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆41Updated last month
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆27Updated last year
- CellANOVA: Cell State Space Analysis of Variance for signal recovery in single cell batch integration☆50Updated 11 months ago
- Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.☆38Updated 2 months ago
- iterative clustering pipeline of big single cell datasets.☆33Updated last month
- ☆30Updated 6 months ago
- Analysis of imbalanced data and its impacts in a scRNA-seq integration setting☆30Updated 7 months ago
- ☆41Updated last month
- CAST package☆40Updated 11 months ago
- Mitochondrial Alteration Enrichment and Genome Analysis Toolkit☆22Updated last year
- ☆29Updated 2 years ago
- Information-based dimensionality reduction☆29Updated 9 months ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆87Updated 4 months ago
- Multi-resolution Variational Inference☆22Updated 2 weeks ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.