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Scatac Seq Python Packages

Python packages with the GitHub topic scatac-seq. Sorted by relevance, with stars and monthly downloads.
aertslab
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.

48K 72 11
scverse
muon

muon is a multimodal omics Python framework

29K 267 36
Ekin-Kahraman
rustscenic

Rust + PyO3 reimplementation of the SCENIC+ single-cell regulatory-network pipeline. ATAC preproc, peak calling, GRN, AUCell, topics, cistarget, eRegulon — one pip install, no Java, no MACS2, no dask.

3K 10 1
aertslab
scatac-fragment-tools

Tools for working with scATAC-seq fragment files

2K 7 1
parashardhapola
scarf

Scarf: A scalable tool for single-cell omics data analysis

2K 115 15
sanderlab
scperturb

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

632 173 12
lzj1769
pychromvar

A python package for chromVAR

375 33 5
mvinyard
cell-tools

Single-Cell Data Analysis Tools

216 1 0
gtca
chame

Chromatin analysis module

87 4 0
aristoteleo
epione

Analysis of epigenetic data in Python

83 9 1
mvinyard
sc-tools

Single-Cell Data Analysis Tools

64 1 0
parashardhapola
scarf-toolkit

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.

8 115 15
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