scverse
There are 26 repositories under scverse topic.
scverse/scanpy
Single-cell analysis in Python. Scales to >100M cells.
scverse/scvi-tools
Deep probabilistic analysis of single-cell and spatial omics data
scverse/anndata
Annotated data.
theislab/ehrapy
Electronic Health Record Analysis with Python.
scverse/muon
muon is a multimodal omics Python framework
scverse/rapids_singlecell
rapids_singlecell: GPU-accelerated framework for scRNA analysis
scverse/pertpy
Single-cell perturbation analysis
icbi-lab/infercnvpy
Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
scverse/mudata
Multimodal Data (.h5mu) implementation for Python
nf-core/scdownstream
A single cell transcriptomics pipeline for QC, integration and making the data presentable
scverse/scvi-tutorials
Notebooks used in scvi-tools tutorials
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.
complextissue/pytximport
Feature-rich Python implementation of the tximport package for gene count estimation.
scverse/Muon.jl
Muon for Julia
scverse/muon-tutorials
Tutorials for multimodal omics data analysis
metaspace2020/metaspace-converter
Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData
scverse/governance
Governance docs for scverse
TileDB-Inc/scverse-ml-workshop-2024
Scripts/Notebooks for "Training models on atlas-scale single-cell datasets" at scverse Conference 2024
vjcitn/scviR
experimental interface between R and scvi-tools
YosefLab/treedata
anndata with trees
complextissue/pyclustree
A Python alternative to `clustree` for assessing single-cell RNA-sequencing clusters.
gtca/chame
Chromatin analysis module
cantinilab/GRnnData
Awesome GRN enhanced AnnData toolkit
hds-sandbox/scverse-2024-workshop
Dimensionality reduction and interactive web visualization for the scverse 2024 conference
scverse/muon-site
Muon website
YosefLab/pycea
scverse lineage tracing analysis toolkit