Alternatives and similar repositories for cookieninja

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

• scverse / formulaic-contrasts

  View on GitHub
  Build contrasts for models defined with formulaic
  ☆12Feb 9, 2026Updated last week
• osl-incubator / scicookie

  View on GitHub
  Cookiecutter template for a Python package.
  ☆20Dec 15, 2025Updated 2 months ago
• scverse / ecosystem-packages

  View on GitHub
  Registry for scverse ecosystem packages
  ☆34Feb 10, 2026Updated last week
• laminlabs / bionty-base

  View on GitHub
  Access public biological ontologies.
  ☆15Aug 7, 2024Updated last year
• cjolowicz / retrocookie

  View on GitHub
  Retrocookie updates Cookiecutter templates with changes from generated projects
  ☆33Jul 30, 2024Updated last year
• scverse / shadows

  View on GitHub
  Shadow objects for AnnData and MuData (experimental)
  ☆11Feb 28, 2025Updated 11 months ago
• theislab / geome

  View on GitHub
  ☆15Nov 24, 2025Updated 2 months ago
• scverse / conference-2024

  View on GitHub
  Slides and Notebooks for scverse 2024
  ☆17Sep 24, 2024Updated last year
• scverse / genomic-features

  View on GitHub
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Feb 9, 2026Updated last week
• YeoLab / bento-tools

  View on GitHub
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆86Nov 16, 2025Updated 3 months ago
• dask-contrib / dask-ctl

  View on GitHub
  Tools to provide a control plane for managing the lifecycle of Dask clusters.
  ☆25Jan 25, 2024Updated 2 years ago
• scverse / pytometry

  View on GitHub
  Flow & mass cytometry analytics.
  ☆58Feb 9, 2026Updated last week
• morphometrics / morphometrics

  View on GitHub
  ☆22Aug 17, 2023Updated 2 years ago
• Euro-BioImaging / BatchConvert

  View on GitHub
  A nextflow based tool that wraps bfconvert and bioformats2raw to convert image data collections to OME-TIFF and OME-Zarr, respectively, i…
  ☆25Mar 14, 2025Updated 11 months ago
• scverse / napari-spatialdata

  View on GitHub
  Interactive visualization of spatial omics data
  ☆75Feb 9, 2026Updated last week
• dylkot / scsim

  View on GitHub
  Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells…
  ☆29Oct 16, 2021Updated 4 years ago
• pradyunsg / sphinx-theme-builder

  View on GitHub
  Streamline the Sphinx theme development workflow (maintained, but extremely stable as of Dec 2025)
  ☆31Dec 21, 2025Updated last month
• cruft / cruft

  View on GitHub
  Allows you to maintain all the necessary cruft for packaging and building projects separate from the code you intentionally write. Built …
  ☆1,552Dec 25, 2024Updated last year
• hackebrot / pytest-cookies

  View on GitHub
  The pytest plugin for your Cookiecutter templates. 🍪
  ☆188Jul 10, 2023Updated 2 years ago
• napari-threedee / napari-threedee

  View on GitHub
  A 3D interactivity toolbox for napari
  ☆37Jul 8, 2025Updated 7 months ago
• nf-core / proteomicslfq

  View on GitHub
  Proteomics label-free quantification (LFQ) analysis pipeline
  ☆37Jan 13, 2025Updated last year
• allenporter / ical

  View on GitHub
  iCalendar rfc 2445 implementation
  ☆42Updated this week
• BioimageAnalysisCoreWEHI / napari_lattice

  View on GitHub
  Napari plugin for custom analysis and visualization of lattice lightsheet and Oblique Plane Microscopy data. The plugin is optimized for …
  ☆14Feb 4, 2026Updated last week
• openproblems-bio / task_batch_integration

  View on GitHub
  ☆12Nov 7, 2025Updated 3 months ago
• nf-core / mhcquant

  View on GitHub
  Identify and quantify MHC eluted peptides from mass spectrometry raw data
  ☆44Feb 6, 2026Updated last week
• copier-org / copier

  View on GitHub
  Library and command-line utility for rendering projects templates.
  ☆3,130Updated this week
• pradyunsg / sphinx-inline-tabs

  View on GitHub
  Add inline tabbed content to your Sphinx documentation. (maintained, though extremely stable as of Jan 2022)
  ☆90Jan 26, 2026Updated 3 weeks ago
• retextjs / retext-sentence-spacing

  View on GitHub
  plugin to check spacing between sentences
  ☆10Sep 10, 2023Updated 2 years ago
• lemeow125 / DRF_Template

  View on GitHub
  A Django REST Framework template for building RESTful APIs
  ☆10Dec 7, 2025Updated 2 months ago
• Exscientia / rdvc

  View on GitHub
  ☆11Oct 31, 2023Updated 2 years ago
• skitsanos / gemini-ocr

  View on GitHub
  PDF Screenshot OCR Analysis with Google Gemini Pro
  ☆13Jan 27, 2026Updated 3 weeks ago
• nabizi / linkedin-post-formatter

  View on GitHub
  LinkedIn Post Formatter is a free open source tool that helps you format your LinkedIn content easily
  ☆11Nov 26, 2023Updated 2 years ago
• jkeefe / Custom-Viewer-for-DocumentCloud

  View on GitHub
  Sharing a viewer we built for WNYC.
  ☆12May 10, 2011Updated 14 years ago
• Sparky-python / Arista_scripts

  View on GitHub
  ☆11May 11, 2022Updated 3 years ago
• keshavagrawal89 / fastapi_boilerplate

  View on GitHub
  Sync FastAPI boilerplate. Auth Enabled. Supabase. Postgres
  ☆12May 28, 2025Updated 8 months ago
• trevorm4 / HeistGemPricechecker

  View on GitHub
  Prices heist gems using OCR and Poe.Ninja api
  ☆14Dec 26, 2022Updated 3 years ago
• fredhutchio / intro-bioinformatics

  View on GitHub
  Website and slides for intro to bioinformatics class at Fred Hutch
  ☆13Jun 4, 2018Updated 7 years ago
• mahogny / Endrov

  View on GitHub
  A modular framework for image processing and analysis, aimed at the biological sciences
  ☆13Oct 16, 2013Updated 12 years ago
• jensdebruijn / TAGGS

  View on GitHub
  Toponym-based Algorithm for Grouped Geoparsing of Social media
  ☆11Mar 30, 2020Updated 5 years ago