16 projects
flashdeconv
Fast Linear Algebra for Scalable Hybrid Deconvolution of Spatial Transcriptomics
passk-inference
Paired pass@k inference and grid-based response kernels
kintsugi-st
Tissue-wide RNA density and composition estimation from thinned molecule splits
mllmcelltype
A Python module for cell type annotation using various LLMs.
chatspatial
ChatSpatial: Natural language-driven spatial transcriptomics analysis via Model Context Protocol (MCP) integration
spagcn-modern
Maintained Python fork of SpaGCN
scvelo-modern
A minimally maintained scVelo distribution with modern NumPy compatibility
fastccc-modern
Focused, maintained FastCCC runtime for cell-cell communication analysis
stalign-modern
Focused maintained STalign runtime for pairwise 2D spatial registration
paste-modern
Focused maintained PASTE runtime for spatial transcriptomics registration
stagate-modern
Maintained STAGATE graph-attention autoencoder for spatial transcriptomics
graphst-modern
Maintained Python distribution of GraphST
spatialde-modern
Maintained Python 3 fork of SpatialDE
naivede-modern
Maintained Python 3 fork of NaiveDE
edgemap
Heritability mapping with spatially informed ligand-receptor gene annotations
flashs
Flash-S: Frequency-domain Linearized Adaptive Spatial Hypothesis testing via Sketching
