muon is a multimodal omics Python framework
Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.
CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for designing cell type-specific sequences.
Parse ArchR arrow files to anndata h5ad
Tools for working with scATAC-seq fragment files
A crash course in scATAC-seq data processing
Single-Cell Data Analysis Tools
Snakemake pipeline for scATAC-seq pseudobulk replicate creation
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