Single-cell analysis in Python. Scales to >100M cells.
Annotated data.
🏆 #1 Multi-LLM consensus framework | 550+ stars | 95% accuracy | 10+ LLM providers | Leading cell annotation tool
muon is a multimodal omics Python framework
Convert between AnnData and SingleCellExperiment
Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data
Learning cell communication from spatial graphs of cells
An easy-to-use PyTorch implementation of Automatic Cell-Types Identification of single-cell RNA sequencing using Neural Networks (ACTINN)
Notes and studies about single-cell RNA-Seq analysis
Intuitive Nonparametric Gene Network Search Algorithm
anndata with trees
scverse lineage tracing analysis toolkit
Sobolev alignment of deep probabilistic models for comparing single cell profiles
Cell Analyzer for Flow Experiment
Interactive web application for analyzing scRNA-seq data using Scanpy
A collection of Plotly-based functions to visualize Scanpy data mimicking functions from scanpy.pl package.
Multimodal datasets, in MuData format
Python readers for different data formats for FASTGenomics.
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