CASSIA: A Multi-Agent LLM-Based Single-Cell Cell Type Annotation Framework
Accelerated, Python-only, single-cell integration benchmarking metrics
PENCIL is a novel tool for singlecell data analysis to identify phenotype associated subpopulations and informative genes simultaneously.
Single cell classification and feature engineering using DREMI scores
Multi-modal integration of single-cell and spatial proteomics data
Python toolkit for image-based spatial transcriptomics (CosMx, MERFISH, Xenium). Unified data object for expression, polygons, and FOV images, plus QC, clustering, point- and polygon-based spatial statistics, and polygon-native cell-cell communication using real membrane contact geometry.
Single_cell_Sequencing_Oncology
Describe immune reconstitution in Multiple Sclerosis using mass cytometry data
End-to-end spatial transcriptomics pipeline for 10x Genomics Visium human brain glioblastoma — cell type annotation, GBM subtype characterization, and spatial neighborhood analysis
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