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Calico

Popular repositories Loading

  1. basenji basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    Python 444 129

  2. borzoi borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    Python 186 26

  3. scBasset scBasset Public

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

    Jupyter Notebook 98 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 75 13

  6. baskerville baskerville Public

    Machine learning methods for DNA sequence analysis.

    Python 51 15

Repositories

Showing 10 of 48 repositories
  • 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 3 0 10 0 Updated Aug 7, 2025
  • msTrawler Public
    calico/msTrawler’s past year of commit activity
    R 9 GPL-2.0 2 0 0 Updated Jul 23, 2025
  • baskerville Public

    Machine learning methods for DNA sequence analysis.

    calico/baskerville’s past year of commit activity
    Python 51 Apache-2.0 15 1 2 Updated Jul 9, 2025
  • HE-regression Public
    calico/HE-regression’s past year of commit activity
    R 0 MIT 1 0 0 Updated Jul 9, 2025
  • westminster Public

    Benchmarking baskerville models for regulatory sequence activity prediction

    calico/westminster’s past year of commit activity
    Python 1 Apache-2.0 3 1 3 Updated Jun 30, 2025
  • borzoi-paper Public

    Analyses related to the Borzoi paper.

    calico/borzoi-paper’s past year of commit activity
    Jupyter Notebook 17 Apache-2.0 4 1 0 Updated Jun 10, 2025
  • borzoi Public

    RNA-seq prediction with deep convolutional neural networks.

    calico/borzoi’s past year of commit activity
    Python 186 Apache-2.0 26 7 2 Updated Jun 10, 2025
  • basenji Public

    Sequential regulatory activity predictions with deep convolutional neural networks.

    calico/basenji’s past year of commit activity
    Python 444 Apache-2.0 129 79 5 Updated May 16, 2025
  • catnap Public

    CATNAP-related code

    calico/catnap’s past year of commit activity
    Python 2 MIT 1 1 9 Updated May 13, 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

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