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yueren13
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A novel Clustering algorithm by measuring Direction Centrality (CDC) locally. It adopts a density-independent metric based on the distribution of K-nearest neighbors (KNNs) to distinguish between i…
A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner
Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology
Reference mapping for single-cell genomics
UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data
Deconvolution of spatial transcriptomics at single-cell resolution
Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics
CellRank: dynamics from multi-view single-cell data
DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map the cell transcriptome as a function of its environment.
A scanpy extension to analyse single-cell TCR and BCR data.
Generate high quality, publication ready visualizations for single cell transcriptomics data.
Spark: The Definitive Guide's Code Repository
CellNeighborEX: Deciphering Neighbor-Dependent Gene Expression from Spatial Transcriptomics Data
Bayesian network models for community detection in spatially resolved single cell data
SpatialCorr: Identify gene sets with spatially varying correlation
Workshop on effectively using the DelayedArray framework to support the analysis of large datasets
SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
Fit Gamma-Poisson Generalized Linear Models Reliably
Framework for sensitive DE testing (using neighbourhoods)
Spatial cellular architecture predicts prognosis in glioblastoma - Nature Communications
Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data
DoubletFinder clone to preserve the version that works for Seurat 4.