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@ciernialab Ciernia Lab

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    16 repositories

    • ROIMAPer

      Public
      FIJI macros to map an atlas of ROIs to images.
      fiji-pluginbrain-regionsimagej-macro
      fiji-pluginbrain-regionsimagej-macro
      ImageJ Macro
      •
      MIT License
      •1•3•2•0•Updated Apr 23, 2026Apr 23, 2026

    • MicrogliaMorphology2

      Public
      An updated version of the MicrogliaMorphology pipeline that is no longer dependent on FracLac
      ImageJ Macro
      •0•0•0•0•Updated Apr 6, 2026Apr 6, 2026

    • MicrogliaMorphology

      Public
      ImageJ macro for microglia morphology analysis
      ImageJ Macro
      •
      MIT License
      •3•18•0•0•Updated Apr 3, 2026Apr 3, 2026

    • Chaney-et-al.-2026

      Public
      Microglia morphology analysis for Chaney et al. 2026 paper
      1•0•0•0•Updated Jan 27, 2026Jan 27, 2026

    • Rose-et-al.-2026

      Public
      RNA-seq analysis for Tregs paper collaboration with Paul Ashwood
      R
      •0•0•0•0•Updated Nov 17, 2025Nov 17, 2025

    • Kim2026_VisiumMicrogliaMorphology

      Public
      Scripts for Kim et al., 2026
      ImageJ Macro
      •0•0•1•0•Updated Sep 24, 2025Sep 24, 2025

    • Bajaj-RNAseq

      Public
      Bajaj RNAseq
      R
      •0•0•0•0•Updated May 17, 2025May 17, 2025

    • MicrogliaMorphologyR

      Public
      R package for microglia morphology analysis. Complimentary to ImageJ macro, MicrogliaMorphology
      R
      •
      Other
      •3•10•2•0•Updated Aug 22, 2024Aug 22, 2024

    • Kim2024_1-4xLPS

      Public
      Code and input data for analysis in Kim et al., 2024
      HTML
      •
      MIT License
      •0•0•0•0•Updated Aug 14, 2024Aug 14, 2024

    • MGEnrichmentApp

      Public
      Repo for the Microglia Gene Set Enrichment Calculator shiny application
      R
      •
      GNU General Public License v3.0
      •1•3•0•0•Updated Jun 3, 2024Jun 3, 2024

    • Ashwood-MIA-RNAseq-2023

      Public
      Osman et al MIA placenta and fetal brain RNAseq analysis
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 12, 2024Apr 12, 2024

    • Alder-ChIPseq-Tutorial

      Public
      Tutorial for processing ChIP-seq PE files
      Shell
      •5•7•0•0•Updated May 22, 2022May 22, 2022

    • RNAseq_Ashwood_2021

      Public
      HTML
      •0•0•0•0•Updated Mar 8, 2022Mar 8, 2022

    • Kim-RNAseq-Single-Stranded-2021

      Public
      R
      •0•0•0•0•Updated Oct 20, 2021Oct 20, 2021

    • Wenderski_RNAseq_Paired_End_2020

      Public
      Shell
      •2•1•0•0•Updated Aug 18, 2021Aug 18, 2021

    • MicrogliaChIPseq

      Public
      Reanalysis of published mouse microglia ChIPseq datasets
      Shell
      •0•0•0•0•Updated Jan 18, 2021Jan 18, 2021
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