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    19 repositories

    • LaQuacco

      Public
      Laboratory quality control for multiplexed imaging data
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Mar 16, 2026Mar 16, 2026

    • crdc-datahub-cli-uploader

      Public
      CRDC datahub data uploader is a command line interface for end users to upload cancer research files and metadata to Datahub.
      Python
      •3•0•0•0•Updated Jul 28, 2025Jul 28, 2025

    • CU-HIMSR

      Public
      A collection of tools provided by HIMSR
      csv-converterrcsv
      csv-converterrcsvfcsinformtxt-to-csvflowcytometryphenoptrphenoptrreportscsv-to-fcs
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 30, 2025Apr 30, 2025

    • DataHubAPIDemo

      Public
      Demonstration scripts and notebooks showing how to use the Data Hub API for data submissions
      Jupyter Notebook
      •
      Apache License 2.0
      •1•0•0•0•Updated Apr 28, 2025Apr 28, 2025

    • mibilib

      Public archive
      Python client for IONpath MIBItracker API, plus utility functions for working with MIBItiff images.
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •9•0•0•0•Updated Jul 31, 2024Jul 31, 2024

    • phenoptrReports

      Public archive
      Create analysis reports from inForm data.
      R
      •
      zlib License
      •7•0•0•0•Updated Jul 31, 2024Jul 31, 2024

    • phenoptr

      Public archive
      Helper functions for working with inForm data.
      R
      •
      zlib License
      •13•0•0•0•Updated Jul 31, 2024Jul 31, 2024

    • UpSetR

      Public
      An R implementation of the UpSet set visualization technique published by Lex, Gehlenborg, et al..
      R
      •
      Other
      •165•0•0•0•Updated Feb 6, 2024Feb 6, 2024

    • openxlsx

      Public
      openxlsx - a fast way to read and write complex xslx files
      R
      •
      Other
      •76•0•0•0•Updated Feb 4, 2024Feb 4, 2024

    • CU-PhenoNorm

      Public
      ImageJ Macro
      •0•1•0•0•Updated Jul 25, 2023Jul 25, 2023

    • CU-CellSeg

      Public
      Cell segmentation of multi-channel images
      imagej2batchcells
      imagej2batchcellsnucleibio-formatsmulti-channelmacroihccell-segmentationmembrane
      ImageJ Macro
      •
      GNU General Public License v3.0
      •0•4•0•0•Updated May 8, 2023May 8, 2023

    • CU-MacroLibrary

      Public
      ImageJ2 macro library with variables and functions
      libraryimagej2fiji
      libraryimagej2fijimacrocu-cellsegcu-iscore
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 28, 2023Apr 28, 2023

    • CU-IScore

      Public
      IHC scoring of multi-channel images
      imagej2scoringbatch
      imagej2scoringbatchbio-formatsmulti-channelmacrodabihcpolarisimmunofluorescence
      ImageJ Macro
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Apr 26, 2023Apr 26, 2023

    • premessa

      Public
      R package for pre-processing of mass and flow cytometry data
      R
      •
      GNU General Public License v3.0
      •24•0•0•0•Updated Jan 23, 2023Jan 23, 2023

    • mibi-bin-tools

      Public archive
      Tools for extracting tif images from mibiscope bin files
      Python
      •
      Other
      •3•0•0•0•Updated Nov 28, 2022Nov 28, 2022

    • toffy

      Public archive
      Scripts for interacting with and generating data from the commercial MIBIScope
      Jupyter Notebook
      •
      Other
      •3•0•0•0•Updated Nov 28, 2022Nov 28, 2022

    • CSV-to-FCS

      Public archive
      Short scripts for converting CSV/TXT files into FCS files, and vise versa.
      R
      •16•0•0•0•Updated May 4, 2022May 4, 2022

    • rtree

      Public
      R-Trees for point data in R
      C++
      •3•0•0•0•Updated Jul 21, 2021Jul 21, 2021

    • phenoptrExamples

      Public archive
      Example data for use with the phenoptr package
      R
      •
      zlib License
      •2•0•0•0•Updated Jun 11, 2021Jun 11, 2021
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