Alternatives and similar repositories for bionty-base

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

• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated this week
• scverse / formulaic-contrasts
  Build contrasts for models defined with formulaic
  ☆13Updated last week
• fabilab / northstar
  Single cell type annotation guided by cell atlases, with freedom to be queer
  ☆25Updated 3 years ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆32Updated 3 weeks ago
• laminlabs / bionty
  Access & manage biological ontologies.
  ☆20Updated 2 weeks ago
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆79Updated 4 months ago
• scverse / ecosystem-packages
  Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)
  ☆30Updated this week
• scverse / shadows
  Shadow objects for AnnData and MuData (experimental)
  ☆11Updated 8 months ago
• pfizer-opensource / bigwig-loader
  A fast dataloader for bigwig files made for machine learning
  ☆28Updated last week
• lilab-bcb / harmony-pytorch
  ☆56Updated 5 months ago
• HumanCellAtlas / sctools
  Utilities for large scale distributed single cell data processing
  ☆24Updated 3 months ago
• mikelkou / fava
  Functional Associations using Variational Autoencoders
  ☆40Updated 3 weeks ago
• theislab / batchglm
  Fit generalized linear models in python.
  ☆28Updated 2 years ago
• bioFAM / mofapy2
  Multi-omics factor analysis v2
  ☆53Updated last week
• saketkc / pySCTransform
  Python package to perform normalization and variance-stabilization of single-cell data
  ☆25Updated 3 months ago
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆97Updated last week
• chanzuckerberg / single-cell-curation
  Code and documentation for the curation of cellxgene datasets
  ☆49Updated last week
• theislab / scAnalysisTutorial
  ☆10Updated 8 years ago
• lcmmichielsen / scHPL
  ☆37Updated 7 months ago
• nf-core / molkart
  A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
  ☆13Updated this week
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆61Updated last week
• ayshwaryas / ddqc
  Biology-centered data-driven quality control for scRNA-seq
  ☆18Updated 2 years ago
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated last year
• NygenAnalytics / CyteType
  Multi-agent driven cell type annotation for single-cell RNA-Seq data stored in Anndata format
  ☆46Updated last month
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆31Updated last year
• rajewsky-lab / spacemake
  ☆45Updated 3 weeks ago
• pepkit / geofetch
  Builds a PEP from SRA or GEO accessions
  ☆53Updated 3 months ago
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆55Updated last year
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆65Updated 3 months ago
• KenLauLab / dropkick
  Automated cell filtering for single-cell RNA sequencing data
  ☆25Updated last year