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    • palom

      Public
      Piecewise alignment for layers of mosaics
      Python
      MIT License
      42142Updated Dec 19, 2024Dec 19, 2024
    • scimap

      Public
      Spatial Single-Cell Analysis Toolkit
      Python
      MIT License
      2678362Updated Dec 15, 2024Dec 15, 2024
    • Custom codes related to Kader, Lin, Hug manuscript 2024
      R
      0000Updated Dec 13, 2024Dec 13, 2024
    • Harvard Tissue Atlas website
      SCSS
      6320Updated Dec 9, 2024Dec 9, 2024
    • cycif.org

      Public
      cycif.org GitHub Pages Website
      JavaScript
      MIT License
      9244Updated Dec 6, 2024Dec 6, 2024
    • MATLAB
      MIT License
      41210Updated Dec 5, 2024Dec 5, 2024
    • A microscopy viewer for non-experts
      TypeScript
      MIT License
      20102Updated Dec 4, 2024Dec 4, 2024
    • mcmicro

      Public
      Multiple-choice microscopy pipeline
      Nextflow
      MIT License
      58118572Updated Dec 4, 2024Dec 4, 2024
    • JavaScript
      MIT License
      54103Updated Nov 27, 2024Nov 27, 2024
    • ashlar

      Public
      ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
      Python
      MIT License
      431325412Updated Nov 25, 2024Nov 25, 2024
    • prostate

      Public
      Analysis of prostate cancer CyCIF data
      R
      0000Updated Nov 23, 2024Nov 23, 2024
    • Minerva Author is an authoring tool used to create Minerva narrated stories via selection of specific channel groupings and image views.
      JavaScript
      MIT License
      5424Updated Nov 21, 2024Nov 21, 2024
    • OMERO.web application to allow OAuth2 login to OMERO
      Python
      GNU Affero General Public License v3.0
      4100Updated Nov 19, 2024Nov 19, 2024
    • R
      0000Updated Nov 7, 2024Nov 7, 2024
    • Python
      0000Updated Nov 6, 2024Nov 6, 2024
    • Tool to create images and configuration files for Minerva-Story
      Python
      MIT License
      1415191Updated Nov 1, 2024Nov 1, 2024
    • cylinter

      Public
      An Interactive Image Segmentation Filter for Multiplex Microscopy
      Python
      MIT License
      112611Updated Oct 31, 2024Oct 31, 2024
    • mcmicro helpers for local use within the LSP (especially O2)
      Shell
      MIT License
      0000Updated Oct 28, 2024Oct 28, 2024
    • Shell
      0000Updated Oct 24, 2024Oct 24, 2024
    • mcqc

      Public
      Quality control module for mcmicro
      Python
      MIT License
      0000Updated Oct 22, 2024Oct 22, 2024
    • R
      MIT License
      0000Updated Oct 9, 2024Oct 9, 2024
    • vae-paper

      Public
      Jupyter Notebook
      MIT License
      2200Updated Oct 4, 2024Oct 4, 2024
    • Python
      0000Updated Sep 20, 2024Sep 20, 2024
    • gater

      Public
      JavaScript
      MIT License
      3111Updated Sep 16, 2024Sep 16, 2024
    • JavaScript
      MIT License
      626214Updated Sep 16, 2024Sep 16, 2024
    • MATLAB
      1000Updated Sep 11, 2024Sep 11, 2024
    • Renders HTS microscopy image data into a Minerva Story for visual review
      Nextflow
      MIT License
      0020Updated Sep 3, 2024Sep 3, 2024
    • Ludwig Tumor Atlas website
      SCSS
      1101Updated Aug 27, 2024Aug 27, 2024
    • Quantification module for mcmicro
      Python
      14961Updated Aug 9, 2024Aug 9, 2024
    • Clinical disease terminology for annotation of biospecimen records
      Python
      MIT License
      1000Updated Aug 2, 2024Aug 2, 2024