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@labsyspharm

Laboratory of Systems Pharmacology @ Harvard

Reinventing the fundamental science underlying the development of new medicines and their use in individual patients.

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  1. ashlar ashlar Public

    ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration

    Python 162 51

  2. mcmicro mcmicro Public

    Multiple-choice microscopy pipeline

    Nextflow 144 62

  3. scimap scimap Public

    Spatial Single-Cell Analysis Toolkit

    Python 107 35

  4. minerva-story minerva-story Public

    Minerva Story is an image viewer that is designed specifically to make it easy for non-expert users to interact with complex tissue images.

    HTML 54 14

  5. palom palom Public

    Piecewise alignment for layers of mosaics

    Python 34 9

  6. cylinter cylinter Public

    An Interactive Image Segmentation Filter for Multiplex Microscopy

    Python 31 12

Repositories

Showing 10 of 177 repositories
  • minerva-core-ui Public

    A microscopy viewer for non-experts

    labsyspharm/minerva-core-ui’s past year of commit activity
    TypeScript 0 MIT 3 10 1 Updated Jan 20, 2026
  • lsp-idc-minerva-crc02 Public

    IDC DicomWeb Minerva Demo page - CRC02

    labsyspharm/lsp-idc-minerva-crc02’s past year of commit activity
    JavaScript 0 0 0 0 Updated Jan 20, 2026
  • lsp-idc-minerva Public

    IDC DicomWeb Minerva Demo page

    labsyspharm/lsp-idc-minerva’s past year of commit activity
    JavaScript 0 0 0 0 Updated Jan 20, 2026
  • 2025-Vallius-Shi-Novikov-melanoma-PCAII Public

    Custom codes for Vallius, Shi, Novikov et al. manuscript 2025

    labsyspharm/2025-Vallius-Shi-Novikov-melanoma-PCAII’s past year of commit activity
    Jupyter Notebook 0 1 0 0 Updated Jan 18, 2026
  • minerva-cloud-ui Public

    Minerva Cloud is a novel cloud-based (AWS) software for high-dimensional image management, storage and visualization.

    labsyspharm/minerva-cloud-ui’s past year of commit activity
    JavaScript 2 MIT 2 1 9 Updated Jan 17, 2026
  • cdk7-analysis Public
    labsyspharm/cdk7-analysis’s past year of commit activity
    R 0 0 0 0 Updated Jan 12, 2026
  • vae Public
    labsyspharm/vae’s past year of commit activity
    Python 4 MIT 2 0 0 Updated Jan 11, 2026
  • 2025_Williams_Pant_Melanoma-TRM Public
    labsyspharm/2025_Williams_Pant_Melanoma-TRM’s past year of commit activity
    Python 0 0 0 0 Updated Jan 6, 2026
  • scimap Public

    Spatial Single-Cell Analysis Toolkit

    labsyspharm/scimap’s past year of commit activity
    Python 107 MIT 35 48 4 Updated Jan 6, 2026
  • mccellpose Public

    Alternative interface to the Cellpose cell segmentation algorithm that uses constant memory

    labsyspharm/mccellpose’s past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Jan 5, 2026
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