Scatac Seq Python Packages

crested

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.

muon

muon is a multimodal omics Python framework

scatac-fragment-tools

Tools for working with scATAC-seq fragment files

rustscenic

Fast, memory-efficient tools for studying gene regulation in single-cell data, built with Rust and Python.

cytearc

Fast, out-of-core single-cell analysis in Python for RNA, ATAC, protein, and multi-omic data, scaling to 100M+ cells. Mount remote datasets, work within a memory budget, and trace every result through built-in provenance.

scperturb

scPerturb: A resource and a python/R tool for single-cell perturbation data

pychromvar

A python package for chromVAR

zen-norm

ZEN-norm is a Python package for normalising bigWigs of genomic signal, reversing prior normalisation and benchmarking normalisation method performance.

cell-tools

Single-Cell Data Analysis Tools

epione

Analysis of epigenetic data in Python

chame

Chromatin analysis module

sc-tools

Single-Cell Data Analysis Tools