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Calico

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  1. basenji basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    Python 414 127

  2. borzoi borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    Python 98 13

  3. scBasset scBasset Public

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

    Jupyter Notebook 96 13

  4. solo solo Public

    software to detect doublets

    Python 86 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 33 9

Repositories

Showing 10 of 44 repositories
  • baskerville Public

    Machine learning methods for DNA sequence analysis.

    calico/baskerville’s past year of commit activity
    Python 33 Apache-2.0 9 2 4 Updated Dec 20, 2024
  • 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 Dec 20, 2024
  • borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    calico/borzoi’s past year of commit activity
    Python 98 Apache-2.0 13 1 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 4 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
  • solo Public

    software to detect doublets

    calico/solo’s past year of commit activity
    Python 86 MIT 13 9 1 Updated Aug 1, 2024
  • 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 Jun 28, 2024
  • impulse Public

    Fit phenomenological sigmoid and impulse curves with priors to improve interpretability

    calico/impulse’s past year of commit activity
    R 10 MIT 2 1 0 Updated May 29, 2024

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