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@vanallenlab

Van Allen Lab

Clinical Computational Oncology @ Dana-Farber Cancer Institute and the Broad Institute of MIT & Harvard
README.md

Hi there 👋

The Van Allen lab is a computational research group led by Eliezer Van Allen at Dana-Farber Cancer Institute, Harvard Medical School, and the Broad Institute whose mission is to drive precision cancer medicine through clinical computational oncology by:

  • Creating the engine to clinically interpret cancer genomes
  • Discovering response and resistance mechanisms to cancer therapies
  • Developing new ways to dissect cancer data
  • Exploring the inherited and environmental impact on cancer origins
  • Establishing the next generation of computational oncologists

You can learn more by visiting our lab website, reading our publications, and following us on Twitter.

Popular repositories Loading

  1. comut comut Public

    CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots

    Python 99 27

  2. moalmanac moalmanac Public

    Molecular Oncology Almanac, a clinical interpretation algorithm paired with a novel underlying knowledge base for precision cancer medicine

    HTML 43 7

  3. retained-intron-neoantigen-pipeline retained-intron-neoantigen-pipeline Public

    Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.

    Python 29 11

  4. schadendorf-pd1 schadendorf-pd1 Public

    code and data for Liu, Schilling, et al Nat Med 2019

    Jupyter Notebook 18 5

  5. EAC-multiome EAC-multiome Public

    Jupyter Notebook 17 8

  6. neoantigen_calling_pipeline neoantigen_calling_pipeline Public

    Pipeline to call somatic cancer neoantigens from mutations in patient tumor DNA

    Python 14 9

Repositories

Showing 10 of 76 repositories
  • moalmanac-db Public

    Underlying content for the Molecular Oncology Almanac's database

    vanallenlab/moalmanac-db's past year of commit activity
    Python 9 GPL-2.0 8 28 0 Updated Sep 19, 2026
  • moalmanac Public

    Molecular Oncology Almanac, a clinical interpretation algorithm paired with a novel underlying knowledge base for precision cancer medicine

    vanallenlab/moalmanac's past year of commit activity
    HTML 43 GPL-2.0 7 5 2 Updated Sep 9, 2026
  • region-specific-approvals-sop Public

    An SOP for curating region-specific regulatory approvals

    vanallenlab/region-specific-approvals-sop's past year of commit activity
    0 CC-BY-4.0 0 0 0 Updated Sep 3, 2026
  • NET2.0 Public
    vanallenlab/NET2.0's past year of commit activity
    Jupyter Notebook 0 GPL-2.0 0 0 0 Updated Aug 24, 2026
  • unexplained_familial_cancer Public

    This repository (currently work in progress) is used to store the code and findings exploring genomic causes of Unexplained Familial Cancer.

    vanallenlab/unexplained_familial_cancer's past year of commit activity
    WDL 0 GPL-3.0 0 0 0 Updated Aug 21, 2026
  • PatientGenomicSimilarityCode Public
    vanallenlab/PatientGenomicSimilarityCode's past year of commit activity
    Python 0 GPL-2.0 0 0 0 Updated Aug 5, 2026
  • SigProfilerAssignment-wrapper Public

    Implementation repository for SigProfilerAssignment

    vanallenlab/SigProfilerAssignment-wrapper's past year of commit activity
    Python 0 GPL-2.0 0 0 0 Updated Jul 2, 2026
  • agentic-ai-analysis Public

    Analysis for M3A paper

    vanallenlab/agentic-ai-analysis's past year of commit activity
    Python 1 GPL-2.0 0 0 0 Updated Jun 4, 2026
  • agentic-ai-codebase Public

    M3A agent code

    vanallenlab/agentic-ai-codebase's past year of commit activity
    Python 2 GPL-2.0 1 0 0 Updated Jun 4, 2026
  • moalmanac-api Public

    API for moalmanac db and web browser 2.0

    vanallenlab/moalmanac-api's past year of commit activity
    Python 0 GPL-2.0 1 7 0 Updated May 26, 2026
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