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Calico

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  1. basenji basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    Python 424 128

  2. borzoi borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    Python 120 13

  3. scBasset scBasset Public

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

    Jupyter Notebook 99 13

  4. solo solo Public

    software to detect doublets

    Python 88 13

  5. scnym scnym Public

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

    Python 73 12

  6. baskerville baskerville Public

    Machine learning methods for DNA sequence analysis.

    Python 36 10

Repositories

Showing 10 of 44 repositories
  • baskerville Public

    Machine learning methods for DNA sequence analysis.

    calico/baskerville’s past year of commit activity
    Python 36 Apache-2.0 10 2 4 Updated Feb 5, 2025
  • westminster Public

    Benchmarking baskerville models for regulatory sequence activity prediction

    calico/westminster’s past year of commit activity
    Python 1 Apache-2.0 1 0 3 Updated Feb 5, 2025
  • scBasset Public

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

    calico/scBasset’s past year of commit activity
    Jupyter Notebook 99 Apache-2.0 13 4 0 Updated Jan 17, 2025
  • scnym Public

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

    calico/scnym’s past year of commit activity
    Python 73 Apache-2.0 12 7 5 Updated Dec 28, 2024
  • solo Public

    software to detect doublets

    calico/solo’s past year of commit activity
    Python 88 MIT 13 7 1 Updated Dec 28, 2024
  • borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    calico/borzoi’s past year of commit activity
    Python 120 Apache-2.0 13 4 2 Updated Dec 5, 2024
  • borzoi-paper Public

    Analyses related to the Borzoi paper.

    calico/borzoi-paper’s past year of commit activity
    Jupyter Notebook 6 Apache-2.0 1 0 0 Updated Oct 23, 2024
  • romic Public

    romic represents high-dimensional measurements by persistently tracking features, samples, and measurements as a dataset is modified and reformatted. It provides a suite of functions that build on this framework to support data analysis and visualization. These functions are combined into shiny apps tailored to exploratory data analysis.

    calico/romic’s past year of commit activity
    R 5 1 7 0 Updated Sep 25, 2024
  • calico/calicolabs-piccolo’s past year of commit activity
    Python 2 Apache-2.0 1 0 0 Updated Sep 16, 2024
  • calico/DRiDO_Paper_Release’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Aug 19, 2024

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