Alternatives and similar repositories for shadows

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

• scverse / formulaic-contrasts
  Build contrasts for models defined with formulaic
  ☆13Updated last week
• laminlabs / bionty
  Registries for basic biological entities, coupled to public ontologies.
  ☆16Updated this week
• quadbio / cell-annotator
  Automatically annotate cell types, consistently across samples.
  ☆14Updated last week
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated 10 months ago
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated last week
• sagar87 / spatialproteomics
  Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…
  ☆28Updated this week
• 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 2 months ago
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆77Updated last month
• cellarium-ai / cellarium-ml
  Distributed single-cell data analysis.
  ☆31Updated this week
• jkobject / scDataLoader
  a dataloader to work with large single cell datasets from lamindb
  ☆29Updated last month
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆53Updated last week
• cbg-ethz / scDEF
  Deep exponential families for single-cell data.
  ☆20Updated 8 months ago
• laminlabs / bionty-base
  Access public biological ontologies.
  ☆16Updated 11 months ago
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆36Updated 3 weeks ago
• Mr-Milk / SpatialTis
  Spatial analysis toolkit for single cell multiplexed tissue data
  ☆30Updated 11 months ago
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆26Updated 7 months ago
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆50Updated this week
• scverse / cookiecutter-scverse
  Cookiecutter template for scverse
  ☆81Updated last week
• theislab / batchglm
  Fit generalized linear models in python.
  ☆28Updated 2 years ago
• theislab / interactive_plotting
  ☆22Updated 5 years ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆80Updated last week
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆58Updated last month
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆34Updated last week
• PMBio / SpatialDE
  Test genes for Spatial Variation
  ☆14Updated 7 months ago
• nf-core / molkart
  A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
  ☆13Updated 3 weeks ago
• mvinyard / torch-adata
  Create PyTorch Datasets from AnnData
  ☆21Updated 4 months ago
• lilab-bcb / harmony-pytorch
  ☆55Updated 2 months ago
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆21Updated 6 months ago
• MannLabs / scPortrait
  scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
  ☆47Updated 2 weeks ago