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scanpy scverse

599

1.9k

bsd-3-clause

51

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

3,473 commits to main branch, last one a day ago

anndata scverse

153

576

bsd-3-clause

14

Annotated data.

scanpy anndata scverse data-science bioinformatics transcriptomics machine-learning

Created 2017-08-11

1,399 commits to main branch, last one 21 hours ago

SCP zhanghao-njmu

84

386

gpl-3.0

8

An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.

scanpy seurat anndata scrna-seq shiny-app shinyapps scatac-seq shiny-apps single-cell scrna-pipeline seurat-objects single-cell-omics scrna-seq-analysis single-cell-rna-seq single-cell-analysis single-cell-atac-seq single-cell-genomics single-cell-pipeline single-cell-sequencing

Created 2022-03-30

308 commits to main branch, last one 11 months ago

muon scverse

30

217

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

586 commits to main branch, last one 7 days ago

rapids_singlecell scverse

21

148

mit

9

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

481 commits to main branch, last one 23 hours ago

Seurat-to-RNA-Velocity basilkhuder

27

131

unknown

6

A guide to using a Seurat object in conjunction with RNA Velocity

scvelo seurat anndata bustools kallisto velocyto kb-python rna-velocity integrating-loom kallisto-bustools

Created 2020-01-08

99 commits to master branch, last one 2 years ago

sgs fanglu0411

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126

unknown

10

SGS, is a user-friendly, collaborative and versatile browser for visualizing single-cell and spatial multiomics data.

sgs zarr schic scrna mudata scatac sceqtl anndata scmethylc multimodal single-cell spatial-omics visualization genome-browser

Created 2024-07-01

59 commits to main branch, last one about a month ago

mudata scverse

17

77

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

597 commits to main branch, last one 20 days ago

cirrocumulus lilab-bcb

16

74

bsd-3-clause

7

Bring your single-cell data to life

10x webgl scanpy seurat anndata spatial scrna-seq smartseq2 single-cell visualization bioinformatics transcriptomics data-visualization

Created 2019-10-04

2,110 commits to main branch, last one about a month ago

anndataR scverse

9

58

other

11

AnnData interoperability in R

h5ad anndata

Created 2023-04-26

338 commits to main branch, last one 2 months ago