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blegac/README.md

Benjamin Le Gac

I am a Postdoctoral Researcher in Pharmacology and Physiology at the Université de Montréal. My work bridges advanced experimental biology with computational data analysis, driven by a commitment to open science, knowledge sharing, and reproducible research.

Here, I share custom code, analysis pipelines, and workflow automation tools to help streamline data processing and support the broader scientific community.

My Philosophy: Knowledge belongs in the open. I believe that thoughtful experimental planning, combined with transparent, robust, and reproducible analytical pipelines, is key to generating reliable scientific insights.


Research & Biological Expertise

My research specializes in neurovascular coupling, spanning from ex vivo (acute mouse brain slices) to in vivo models.

  • Advanced Imaging & Electrophysiology: Extensive experience in contrast, confocal, and two-photon microscopy, combined with electrophysiological recordings.
  • Tissue & Cellular Assays: Strong background in immunofluorescence (staining, acquisition, and quantification) as well as Flow Cytometry (FACS).
  • Molecular Biology & Genomics: Proficient in genomic and protein workflows, including RNA extraction, RT-PCR, Western Blot, and bulk RNA-seq.

Computational & Analytical Skills

To extract meaningful insights from complex biomedical datasets, I develop custom, automated, and reproducible analytical pipelines:

  • Data Analysis & Scripting: Writing efficient scripts in R and Python to ensure rapid, scalable, and reproducible data processing.
  • Image Analysis: Automating image processing workflows using Fiji/ImageJ macro scripting.
  • Rigorous Statistics: A core focus on applying just, robust, and accurate statistical models to physiological and genomic data.

Toolbelt & Technologies

  • Image Processing: Fiji / ImageJ
  • Programming Languages: Python, R
  • Data Science & Stats: Pandas, NumPy, Scikit-Learn, ggplot2, Tidyverse
  • Tools & Environment: VS Code, RStudio, Jupyter Notebooks, Git/GitHub

Connect with me

Pinned Loading

  1. Fijexcel Fijexcel Public

    A small desktop GUI (CustomTkinter) for organizing Fiji/ImageJ microscopy measurement exports.

    Python

  2. universal-z-stack-profiler universal-z-stack-profiler Public

    An automated, modular Fiji/ImageJ macro for batch Z-stack focus profiling and optimal slice range selection across multi-channel 3D microscopy datasets.

    ImageJ Macro