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Calico

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  1. basenji basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    Python 427 126

  2. borzoi borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    Python 131 14

  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 90 13

  5. scnym scnym Public

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

    Python 74 13

  6. baskerville baskerville Public

    Machine learning methods for DNA sequence analysis.

    Python 37 9

Repositories

Showing 10 of 45 repositories
  • CalicoLipidLibrary Public

    In silico Lipid fragmentation patterns

    calico/CalicoLipidLibrary’s past year of commit activity
    Python 0 MIT 0 3 2 Updated Mar 13, 2025
  • metstats Public

    Library for standardized analysis and visualization of metabolomics data

    calico/metstats’s past year of commit activity
    R 2 MIT 1 0 0 Updated Mar 12, 2025
  • baskerville Public

    Machine learning methods for DNA sequence analysis.

    calico/baskerville’s past year of commit activity
    Python 37 Apache-2.0 9 1 5 Updated Mar 11, 2025
  • do_bwd Public

    Python implementation of extracting body weight dynamics in diversity outbred mice using ARHMM.

    calico/do_bwd’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Feb 25, 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 74 Apache-2.0 13 7 5 Updated Dec 28, 2024
  • solo Public

    software to detect doublets

    calico/solo’s past year of commit activity
    Python 90 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 131 Apache-2.0 14 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 8 Apache-2.0 1 0 0 Updated Oct 23, 2024

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