Single-cell analysis in Python. Scales to >100M cells.

Annotated data.

An iterative multi-LLM consensus framework for accurate cell type annotation in single-cell RNA-seq data

muon is a multimodal omics Python framework

Convert between AnnData and SingleCellExperiment

Learning cell communication from spatial graphs of cells

pseudobulking on an AnnData object

Notes and studies about single-cell RNA-Seq analysis

An easy-to-use PyTorch implementation of Automatic Cell-Types Identification of single-cell RNA sequencing using Neural Networks (ACTINN)

orthomap is a python package to extract orthologous maps (in other words the evolutionary age of a given orthologous group) from OrthoFinder/eggNOG results. Orthomap results (gene ages per orthogroup) can be further used to calculate weigthed expression data (transcriptome evolutionary index) from scRNA sequencing objects.

anndata with trees

Sobolev alignment of deep probabilistic models for comparing single cell profiles

Agentic Cell type annotation for Anndata objects

Cell Analyzer for Flow Experiment

Intuitive Nonparametric Gene Network Search Algorithm

A bioinformatics web app for single cell RNA seq analysis.

Multimodal datasets, in MuData format

Recon Automation Tool is a Python-based toolkit designed for web penetration testing and reconnaissance. It features IP and port scanning, barcode and QR code generation, password and wordlist creation, phone number information gathering, subdomain checking, and even a DDoS attack simulation tool. Ideal for security professionals.

Seurat to AnnData conversion