Alternatives and similar repositories for shadows

Users that are interested in shadows are comparing it to the libraries listed below

• bioFAM / mofaflex
  factor models for omics data
  ☆31Updated this week
• scverse / formulaic-contrasts
  Build contrasts for models defined with formulaic
  ☆12Updated this week
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated last year
• quadbio / cell-annotator
  Automatically annotate cell types, consistently across samples.
  ☆17Updated this week
• laminlabs / bionty
  Registries for biological ontologies.
  ☆23Updated this week
• sagar87 / spatialproteomics
  Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…
  ☆39Updated last month
• cellarium-ai / cellarium-ml
  Distributed single-cell data analysis.
  ☆35Updated last week
• scverse / annbatch
  Minibatch loading for on-disk anndata files, co-developed by Lamin Labs and scverse
  ☆23Updated this week
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆60Updated this week
• scverse / ecosystem-packages
  Registry for scverse ecosystem packages
  ☆32Updated last week
• jkobject / scDataLoader
  a dataloader to work with large single cell datasets from lamindb
  ☆34Updated last month
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated this week
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆105Updated this week
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆82Updated last week
• laminlabs / bionty-base
  Access public biological ontologies.
  ☆15Updated last year
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆58Updated this week
• MICS-Lab / scyan
  Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effe…
  ☆42Updated last year
• scverse / cookiecutter-scverse
  Cookiecutter template for scverse
  ☆87Updated this week
• laminlabs / readfcs
  Read fcs files.
  ☆12Updated 2 months ago
• nf-core / molkart
  A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
  ☆13Updated 2 months ago
• cbg-ethz / scDEF
  Deep exponential families for single-cell data.
  ☆20Updated 2 weeks ago
• broadinstitute / celldega
  Spatial omics analysis and visualization library
  ☆22Updated last week
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆86Updated 2 months ago
• HiDiHlabs / ssam
  ☆27Updated last year
• theislab / geome
  ☆15Updated 2 months ago
• scverse / spatialdata-plot
  Static plotting for spatialdata
  ☆73Updated last week
• scverse / spatialdata-io
  ☆88Updated this week
• laminlabs / nbproject
  Light-weight Jupyter notebook tracker.
  ☆35Updated 9 months ago
• nf-core / mcmicro
  An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.
  ☆30Updated last week