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@QuackenbushLab

QuackenbushLab

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  1. phoenix phoenix Public

    PHOENIX: a tool to infer biologically informed NeuralODEs describing genome-wide regulatory dynamics

    Python 14 5

  2. yarn yarn Public

    YARN: Robust Multi-Tissue RNA-Seq Preprocessing and Normalization

    R 13 2

  3. FENRIR FENRIR Public

    RNA-seq pipeline to detect viral reads

    Shell 7 2

  4. pypanda pypanda Public

    Python implementation of PANDA and LIONESS

    Python 6 9

  5. NetworkDataCompanion NetworkDataCompanion Public

    An R library of utilities for performing analyses on TCGA and GTEx data using the Network Zoo

    HTML 6

  6. grand grand Public

    GRAND database of gene regulatory networks.

    JavaScript 5 2

Repositories

Showing 10 of 23 repositories
  • FERRET Public

    Framework to Evaluate Robustness in Regulatory Networks Using Heterogeneous Cell Types

    QuackenbushLab/FERRET’s past year of commit activity
    0 0 0 0 Updated Feb 27, 2025
  • Adebari_Glioma_scripts Public

    Scripts used to replicate the results for the Adebari et al paper comparing sex differences in glioblastomas and low-grade gliomas.

    QuackenbushLab/Adebari_Glioma_scripts’s past year of commit activity
    R 0 0 0 0 Updated Feb 27, 2025
  • Waelchli_Glioma_scripts Public

    Scripts used in analysis as part of the collaboration between Thomas Waelchli and our group.

    QuackenbushLab/Waelchli_Glioma_scripts’s past year of commit activity
    R 0 0 0 0 Updated Feb 26, 2025
  • BLOBFISH_paper_scripts Public

    These are the scripts needed to replicate the results in the BLOBFISH paper.

    QuackenbushLab/BLOBFISH_paper_scripts’s past year of commit activity
    R 0 0 0 0 Updated Feb 20, 2025
  • NetworkDataCompanion Public

    An R library of utilities for performing analyses on TCGA and GTEx data using the Network Zoo

    QuackenbushLab/NetworkDataCompanion’s past year of commit activity
    HTML 6 GPL-3.0 0 13 0 Updated Feb 17, 2025
  • tcga-data-nf Public

    Workflow to download and prepare TCGA data

    QuackenbushLab/tcga-data-nf’s past year of commit activity
    Nextflow 2 GPL-3.0 1 3 0 Updated Feb 14, 2025
  • grand Public

    GRAND database of gene regulatory networks.

    QuackenbushLab/grand’s past year of commit activity
    JavaScript 5 2 3 0 Updated Jan 6, 2025
  • tcga-data-supplement Public

    supplementary notebooks and configuration files for the tcga-data-manuscript

    QuackenbushLab/tcga-data-supplement’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Nov 26, 2024
  • cobra-experiments Public

    Experiments for the paper "Higher-order correction of persistent batch effects in correlation networks".

    QuackenbushLab/cobra-experiments’s past year of commit activity
    R 4 MIT 0 1 0 Updated Nov 12, 2024
  • QuackenbushLab.github.io Public

    Landing page of the network science lab at Harvard Biostats

    QuackenbushLab/QuackenbushLab.github.io’s past year of commit activity
    HTML 0 MIT 0 0 0 Updated Oct 30, 2024
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