scverse / cookiecutter-scverseLinks
Cookiecutter template for scverse
☆82Updated this week
Alternatives and similar repositories for cookiecutter-scverse
Users that are interested in cookiecutter-scverse are comparing it to the libraries listed below
Sorting:
- Multimodal Data (.h5mu) implementation for Python☆99Updated 3 months ago
- Flow & mass cytometry analytics.☆54Updated last week
- Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)☆27Updated this week
- ☆55Updated 3 months ago
- CZ CELLxGENE Discover Census☆109Updated last week
- Template repository for creating novel models with scvi-tools☆20Updated 2 years ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆83Updated last month
- Registries for basic biological entities, coupled to public ontologies.☆20Updated this week
- Accelerated, Python-only, single-cell integration benchmarking metrics☆72Updated last week
- Python package to perform enrichment analysis from omics data.☆223Updated last week
- Python package for Probe set selection for targeted spatial transcriptomics.☆43Updated 2 weeks ago
- Single-cell perturbation analysis☆201Updated last week
- data and model repository for single-cell data☆135Updated last year
- Matplotlib style for scientific publications☆14Updated last week
- Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effe…☆36Updated 9 months ago
- Multi-omic single-cell optimal transport tools☆172Updated this week
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 7 months ago
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆60Updated last month
- Multi-agent driven cell type annotation for single-cell RNA-Seq data stored in Anndata format☆42Updated 2 weeks ago
- Multi-omics factor analysis v2☆50Updated 10 months ago
- muon is a multimodal omics Python framework☆247Updated last month
- Python package to perform normalization and variance-stabilization of single-cell data☆24Updated 2 months ago
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆75Updated last week
- Shadow objects for AnnData and MuData (experimental)☆11Updated 6 months ago
- Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with mill…☆102Updated 5 months ago
- a dataloader to work with large single cell datasets from lamindb☆29Updated this week
- Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…☆66Updated last year
- scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics☆54Updated last year
- A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.☆26Updated 8 months ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆64Updated 2 months ago