Single-cell analysis in Python. Scales to >1M cells.
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Updated
Oct 18, 2024 - Python
Single-cell analysis in Python. Scales to >1M cells.
Annotated 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
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.
An easy-to-use PyTorch implementation of Automatic Cell-Types Identification of single-cell RNA sequencing using Neural Networks (ACTINN)
Sobolev alignment of deep probabilistic models for comparing single cell profiles
Notes and studies about single-cell RNA-Seq analysis
Intuitive Nonparametric Gene Network Search Algorithm
Multimodal datasets, in MuData format
A bioinformatics web app for single cell RNA seq analysis.
anndata with trees
Python readers for different data formats for FASTGenomics.
scverse lineage tracing analysis toolkit
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