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Calico

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  1. basenji basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    Python 475 137

  2. borzoi borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    Python 265 33

  3. scBasset scBasset Public

    Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.

    Jupyter Notebook 102 13

  4. solo solo Public archive

    software to detect doublets

    Python 98 14

  5. scnym scnym Public

    Semi-supervised adversarial neural networks for classification of single cell transcriptomics data

    Python 78 13

  6. baskerville baskerville Public

    Machine learning methods for DNA sequence analysis.

    Python 66 18

Repositories

Showing 10 of 69 repositories
  • drido-multiomic-paper Public

    Companion R code for "A multiomic lifespan signature in genetically diverse, diet-restricted mice"

    calico/drido-multiomic-paper's past year of commit activity
    R 0 MIT 1 1 0 Updated Sep 29, 2026
  • westminster Public

    Benchmarking baskerville models for regulatory sequence activity prediction

    calico/westminster's past year of commit activity
    Python 2 Apache-2.0 3 1 2 Updated Sep 24, 2026
  • multi-ism Public
    calico/multi-ism's past year of commit activity
    Python 0 Apache-2.0 0 0 0 Updated Sep 23, 2026
  • metisotopes Public

    Pipeline and utilities for stable isotope-labeled (SIL) metabolomics data

    calico/metisotopes's past year of commit activity
    R 0 MIT 0 0 0 Updated Sep 23, 2026
  • mzkitcpp Public

    R package of mass spectrometry utility functions and processing algorithms written in C++

    C++ 1 MIT 0 0 0 Updated Sep 22, 2026
  • claman Public

    Calico Lipidomics and Metabolomics (CLaM) Analysis provides a suite of functions which support data manipulation, statistical analysis and visualizations of mzrollDB files created by MAVEN.

    calico/claman's past year of commit activity
    R 3 0 5 1 Updated Sep 18, 2026
  • baskerville-yeast Public

    Machine learning methods for DNA sequence analysis (Yeast / LLM fork).

    calico/baskerville-yeast's past year of commit activity
    Python 2 Apache-2.0 0 0 1 Updated Sep 18, 2026
  • borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    calico/borzoi's past year of commit activity
    Python 265 Apache-2.0 33 10 3 Updated Sep 18, 2026
  • baskerville Public

    Machine learning methods for DNA sequence analysis.

    calico/baskerville's past year of commit activity
    Python 66 Apache-2.0 18 2 3 Updated Sep 18, 2026
  • glycoviz Public

    Glycan analysis application with build-in validation algorithm.

    calico/glycoviz's past year of commit activity
    Python 2 MIT 0 0 0 Updated Sep 14, 2026

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