Alternatives and similar repositories for bionty

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

• jkobject / scDataLoader
  a dataloader to work with large single cell datasets from lamindb
  ☆29Updated last week
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆98Updated 2 weeks ago
• scverse / shadows
  Shadow objects for AnnData and MuData (experimental)
  ☆11Updated 8 months ago
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆56Updated this week
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated last year
• cellarium-ai / cellarium-ml
  Distributed single-cell data analysis.
  ☆36Updated 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…
  ☆38Updated last week
• chanzuckerberg / single-cell-curation
  Code and documentation for the curation of cellxgene datasets
  ☆49Updated this week
• scverse / formulaic-contrasts
  Build contrasts for models defined with formulaic
  ☆13Updated last week
• scverse / ecosystem-packages
  Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)
  ☆30Updated this week
• theislab / batchglm
  Fit generalized linear models in python.
  ☆28Updated 2 years ago
• cantinilab / Mowgli
  Single-cell multi-omics integration using Optimal Transport
  ☆48Updated 3 months ago
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated this week
• lilab-bcb / harmony-pytorch
  ☆57Updated 5 months ago
• theislab / geome
  ☆15Updated 3 months ago
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆79Updated 4 months ago
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆59Updated 3 weeks ago
• NygenAnalytics / CyteType
  Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data
  ☆70Updated this week
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆113Updated last week
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆50Updated last week
• laminlabs / bionty-base
  Access public biological ontologies.
  ☆15Updated last year
• theislab / scTab
  ☆61Updated last year
• bioFAM / mofapy2
  Multi-omics factor analysis v2
  ☆54Updated 3 weeks ago
• quadbio / cell-annotator
  Automatically annotate cell types, consistently across samples.
  ☆17Updated this week
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆32Updated last month
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆28Updated 10 months ago
• theislab / interactive_plotting
  ☆22Updated 5 years ago
• scverse / spatialdata-notebooks
  ☆62Updated last week
• theislab / multimil
  Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases
  ☆35Updated last month
• pfizer-opensource / bigwig-loader
  A fast dataloader for bigwig files made for machine learning
  ☆28Updated this week