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scanpy scverse

581

1.8k

bsd-3-clause

52

Single-cell analysis in Python. Scales to >1M cells.

python scanpy anndata scverse data-science bioinformatics visualize-data transcriptomics machine-learning

Created 2017-01-29

3,397 commits to main branch, last one a day ago

scvi-tools scverse

341

1.2k

bsd-3-clause

27

Deep probabilistic analysis of single-cell and spatial omics data

scverse cite-seq scrna-seq deep-learning human-cell-atlas variational-bayes single-cell-rna-seq single-cell-genomics deep-generative-model variational-autoencoder

Created 2017-09-06

4,014 commits to main branch, last one 2 days ago

anndata scverse

149

521

bsd-3-clause

14

Annotated data.

scanpy anndata scverse data-science bioinformatics transcriptomics machine-learning

Created 2017-08-11

1,311 commits to main branch, last one 2 days ago

muon scverse

28

202

bsd-3-clause

14

muon is a multimodal omics Python framework

muon mudata scanpy anndata scverse cite-seq scrna-seq scatac-seq multi-omics multimodal-data multimodal-omics-analysis

Created 2020-02-03

540 commits to master branch, last one 2 months ago

ehrapy theislab

17

133

apache-2.0

5

Electronic Health Record Analysis with Python.

ehr scverse electronic-health-record electronic-medical-record

Created 2021-06-11

1,730 commits to main branch, last one a day ago

infercnvpy icbi-lab

27

123

bsd-3-clause

3

Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.

cnv scverse single-cell

Created 2021-01-26

187 commits to main branch, last one 3 days ago

rapids_singlecell scverse

18

103

mit

8

Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data processing and analysis.

gpu anndata scverse single-cell bioinformatics

Created 2021-05-05

430 commits to main branch, last one 4 days ago

pertpy scverse

19

92

mit

5

Perturbation Analysis in the scverse ecosystem.

scverse single-cell perturbation

Created 2021-06-23

944 commits to main branch, last one 5 days ago

mudata scverse

16

69

bsd-3-clause

6

Multimodal Data (.h5mu) implementation for Python

muon mudata anndata scverse genomics multi-omics data-analysis multimodal-omics-analysis

Created 2021-08-04

500 commits to main branch, last one 2 days ago

scvi-tutorials scverse

24

39

bsd-3-clause

7

Notebooks used in scvi-tools tutorials

scverse tutorial scvi-tools

Created 2020-09-13

534 commits to main branch, last one 2 days ago