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@nolanlab

Garry P. Nolan Laboratory

Pinned

  1. CODEX Public

    Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation

    Java 18 5

  2. Run CODEX apps on the web: driftcompensation, deconvolution, segmentation, clustering and viewing

    Java

  3. Project to deploy the CODEX server on the left and right computers in the nolan lab.

    Java

  4. scaffold Public

    scaffold

    R 17 8

  5. vortex Public

    VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:

    Java 28 3

  6. An ImageJ plugin to view and analyze CODEX images from the CODEXToolkit.

    Java 1

Repositories

  • SpatialScore Public

    R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in cutaneous T cell lymphoma".

    R 0 0 0 0 Updated Sep 26, 2021
  • TissueSchematics Public

    Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"

    Jupyter Notebook 0 0 0 0 Updated Sep 8, 2021
  • NeighborhoodCoordination Public

    Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive front"

    Jupyter Notebook 11 8 1 0 Updated Sep 6, 2021
  • REDSEA Public
    MATLAB 6 1 0 0 Updated Jul 6, 2021
  • CODEX Public

    Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation

    Java 18 MIT 5 5 2 Updated Jun 14, 2021
  • Rclusterpp Public

    Memory efficient clustering in R for large datasets

    C++ 15 8 5 1 Updated May 31, 2021
  • vortex Public

    VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:

    Java 28 3 20 0 Updated May 13, 2021
  • sandbox Public

    Accessory algorithms and data structures for multivariate single-cell analysis. VorteX and CODEX projects use this library

    Java 0 MIT 0 0 0 Updated May 13, 2021
  • CodexUpgrader Public

    This tool is to help Codex users upgrade their processed Codex data from Nolan lab tiff or old format to the new image sequence format that is compatible to be used with MAV for analysis.

    Java 0 0 0 1 Updated Apr 26, 2021
  • CODEXMSICreator Public

    A visual studio project to create MSI for CODEX uploader and segmentation JAR

    0 0 0 0 Updated Sep 22, 2020

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