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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 145 62

  3. scimap scimap Public

    Spatial Single-Cell Analysis Toolkit

    Python 108 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 55 14

  5. palom palom Public

    Piecewise alignment for layers of mosaics

    Python 35 9

  6. cylinter cylinter Public

    An Interactive Image Segmentation Filter for Multiplex Microscopy

    Python 31 12

Repositories

Showing 10 of 178 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 2 Updated Jan 28, 2026
  • mcmicro Public

    Multiple-choice microscopy pipeline

    labsyspharm/mcmicro’s past year of commit activity
    Nextflow 145 MIT 62 63 2 Updated Jan 27, 2026
  • Chen-Santagata-Kidney-2026 Public
    labsyspharm/Chen-Santagata-Kidney-2026’s past year of commit activity
    MATLAB 0 MIT 0 0 0 Updated Jan 27, 2026
  • cdk7-analysis Public
    labsyspharm/cdk7-analysis’s past year of commit activity
    R 0 0 0 0 Updated Jan 26, 2026
  • orion-fish-ms-2026 Public

    Kader_Santagata_ORION-FISH 2026

    labsyspharm/orion-fish-ms-2026’s past year of commit activity
    R 0 1 0 0 Updated Jan 25, 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 10 Updated Jan 24, 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 22, 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
  • 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
  • vae Public
    labsyspharm/vae’s past year of commit activity
    Python 4 MIT 2 0 0 Updated Jan 11, 2026
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