Alternatives and similar repositories for shadows

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

• laminlabs / bionty
  Registries for biological entities, coupled to public ontologies.
  ☆16Updated last week
• scverse / formulaic-contrasts
  Build contrasts for models defined with formulaic
  ☆13Updated last week
• quadbio / cell-annotator
  Automatically annotate cell types, consistently across samples.
  ☆14Updated 2 months ago
• jkobject / scDataLoader
  a dataloader to work with large single cell datasets from lamindb
  ☆27Updated 2 weeks ago
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated 9 months ago
• scverse / ecosystem-packages
  Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)
  ☆25Updated this week
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆99Updated last month
• sagar87 / spatialproteomics
  Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…
  ☆28Updated last week
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated last week
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆53Updated last week
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆76Updated 3 weeks ago
• laminlabs / bionty-base
  Access public biological ontologies.
  ☆16Updated 11 months ago
• cellarium-ai / cellarium-ml
  Distributed single-cell data analysis.
  ☆31Updated this week
• kaizhang / anndata-rs
  ☆31Updated last month
• cbg-ethz / scDEF
  Deep exponential families for single-cell data.
  ☆21Updated 8 months ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆80Updated 3 weeks ago
• single-cell-data / TileDB-SOMA
  Python and R SOMA APIs using TileDB’s cloud-native format. Ideal for single-cell data at any scale.
  ☆108Updated this week
• theislab / geome
  ☆15Updated last year
• Mr-Milk / SpatialTis
  Spatial analysis toolkit for single cell multiplexed tissue data
  ☆30Updated 10 months ago
• MICS-Lab / scyan
  Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effe…
  ☆36Updated 7 months ago
• MannLabs / scPortrait
  scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
  ☆47Updated this week
• theislab / interactive_plotting
  ☆22Updated 4 years ago
• mvinyard / torch-adata
  Create PyTorch Datasets from AnnData
  ☆20Updated 4 months ago
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆30Updated last week
• bioFAM / mofapy2
  Multi-omics factor analysis v2
  ☆46Updated 8 months ago
• nf-core / molkart
  A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
  ☆12Updated last week
• lilab-bcb / harmony-pytorch
  ☆55Updated last month
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆49Updated this week
• HiDiHlabs / ssam
  ☆27Updated 9 months ago
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆35Updated last week