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Calico

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  1. basenji basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    Python 428 127

  2. borzoi borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    Python 135 16

  3. scBasset scBasset Public

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

    Jupyter Notebook 97 13

  4. solo solo Public

    software to detect doublets

    Python 92 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 38 10

Repositories

Showing 10 of 47 repositories
  • baskerville Public

    Machine learning methods for DNA sequence analysis.

    calico/baskerville’s past year of commit activity
    Python 38 Apache-2.0 10 1 3 Updated Apr 7, 2025
  • bidac_induced_protein_degradation_analysis Public

    This repository contains accompanying analysis code for the paper "Morphological and genetic screens reveal mechanisms of BiDAC-induced plasma membrane protein degradation".

    calico/bidac_induced_protein_degradation_analysis’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Mar 29, 2025
  • basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    calico/basenji’s past year of commit activity
    Python 428 Apache-2.0 127 76 4 Updated Mar 29, 2025
  • borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    calico/borzoi’s past year of commit activity
    Python 135 Apache-2.0 16 4 2 Updated Mar 27, 2025
  • opencpr Public

    Landing zone for the Open source Calico Pathway Resources (CPR) project.

    calico/opencpr’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Mar 27, 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 18, 2025
  • CalicoLipidLibrary Public

    In silico Lipid fragmentation patterns

    calico/CalicoLipidLibrary’s past year of commit activity
    Python 0 MIT 0 3 1 Updated Mar 13, 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 97 Apache-2.0 13 4 0 Updated Jan 17, 2025

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