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Single Cell Omics Python Packages

Python packages with the GitHub topic single-cell-omics. Sorted by relevance, with stars and monthly downloads.
prism-oncology
scyan

Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effect and can be used for debarcoding or population discovery.

1K 43 2
PixelgenTechnologies
pixelgen-pixelator

A command-line tool and library to process and analyze sequencing data from Molecular Pixelation (MPX) and Proximity Network (PNA) assays.

1K 20 4
Ashford-A
univi

UniVI is a scalable multi-modal VAE toolkit for aligning heterogeneous single-cell datasets into a shared latent space—supporting unimodal, dual-modal, and tri-modal (and beyond) integration. It can additionally be used for cross-modal imputation, data generation of biologically-relevant synthetic samples, data denoising, and structured evaluation.

919 5 0
gao-lab
cell-decipher

DECIPHER for learning disentangled cellular embeddings in large-scale heterogeneous spatial omics data

447 24 1
deepomicslab
scoit

SCOIT is an implementation of a probabilistic tensor decomposition framework for single-cell multi-omics data integration.

289 5 2
RabadanLab
randomly

A Library for Denoising Single-Cell Data with Random Matrix Theory

137 38 10
caokai1073
pamona

The software of Pamona, a partial manifold alignment algorithm.

108 22 3
rahulbhadani
scomix

Single-Cell Data Science

39 0 0
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