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Calico

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  1. basenji basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    Python 379 120

  2. scBasset scBasset Public

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

    Jupyter Notebook 88 12

  3. solo solo Public

    software to detect doublets

    Python 77 13

  4. scnym scnym Public

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

    Python 73 12

  5. borzoi borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    Python 70 7

  6. spatial_lda spatial_lda Public

    Probabilistic topic model for identifying cellular micro-environments.

    Python 25 11

Repositories

Showing 10 of 41 repositories
  • 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
  • borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    calico/borzoi’s past year of commit activity
    Python 70 Apache-2.0 7 7 2 Updated Jun 28, 2024
  • baskerville Public

    Machine learning methods for DNA sequence analysis.

    calico/baskerville’s past year of commit activity
    Python 23 Apache-2.0 3 2 1 Updated Jun 25, 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
  • basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    calico/basenji’s past year of commit activity
    Python 379 Apache-2.0 120 71 3 Updated May 28, 2024
  • 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 2 0 10 0 Updated May 20, 2024
  • borzoi-paper Public

    Analyses related to the Borzoi paper.

    calico/borzoi-paper’s past year of commit activity
    Jupyter Notebook 1 Apache-2.0 0 0 0 Updated May 7, 2024
  • solo Public

    software to detect doublets

    calico/solo’s past year of commit activity
    Python 77 MIT 13 7 1 Updated May 3, 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 6 0 Updated Apr 22, 2024
  • scBasset Public

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

    calico/scBasset’s past year of commit activity
    Jupyter Notebook 88 Apache-2.0 12 3 0 Updated Feb 8, 2024

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