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 this week
• laminlabs / bionty
  Access & manage biological ontologies.
  ☆20Updated last week
• mikelkou / fava
  Functional Associations using Variational Autoencoders
  ☆40Updated last week
• chanzuckerberg / single-cell-curation
  Code and documentation for the curation of cellxgene datasets
  ☆49Updated last week
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆79Updated 5 months ago
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆61Updated 3 weeks ago
• pfizer-opensource / bigwig-loader
  A fast dataloader for bigwig files made for machine learning
  ☆28Updated last week
• fabilab / northstar
  Single cell type annotation guided by cell atlases, with freedom to be queer
  ☆25Updated 3 years ago
• scverse / shadows
  Shadow objects for AnnData and MuData (experimental)
  ☆11Updated 8 months ago
• theislab / batchglm
  Fit generalized linear models in python.
  ☆28Updated 2 years 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.
  ☆114Updated last week
• bioFAM / mofapy2
  Multi-omics factor analysis v2
  ☆54Updated 3 weeks ago
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆98Updated 3 weeks ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆32Updated last month
• saketkc / pySCTransform
  Python package to perform normalization and variance-stabilization of single-cell data
  ☆25Updated 4 months ago
• JEFworks-Lab / MERmaid
  WebGL-based viewer for spatially-resolved transcriptomics data
  ☆28Updated 2 years ago
• lcmmichielsen / scHPL
  ☆37Updated 8 months ago
• NygenAnalytics / CyteType
  Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data
  ☆75Updated this week
• lilab-bcb / harmony-pytorch
  ☆58Updated 6 months ago
• scverse / ecosystem-packages
  Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)
  ☆30Updated this week
• pepkit / geofetch
  Builds a PEP from SRA or GEO accessions
  ☆53Updated 2 weeks ago
• HumanCellAtlas / sctools
  Utilities for large scale distributed single cell data processing
  ☆24Updated 4 months ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated last year
• HCA-integration / scAtlasTb
  Pipeline framework for iteratively and reproducibly building and evaluating single cell atlases
  ☆41Updated last week
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆56Updated last year
• Novartis / cellxgene-gateway
  Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…
  ☆65Updated 2 weeks ago
• nf-core / molkart
  A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
  ☆13Updated 2 weeks ago
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆28Updated 10 months ago
• broadinstitute / single_cell_portal
  Tutorials, workflows, and convenience scripts for Single Cell Portal
  ☆50Updated last year