Skip to content
View ian-coccimiglio's full-sized avatar
  • Rossi Lab @ UBC

Highlights

  • Pro

Block or report ian-coccimiglio

Block user

Prevent this user from interacting with your repositories and sending you notifications. Learn more about blocking users.

You must be logged in to block users.

Please don't include any personal information such as legal names or email addresses. Maximum 100 characters, markdown supported. This note will be visible to only you.
Report abuse

Contact GitHub support about this user’s behavior. Learn more about reporting abuse.

Report abuse
ian-coccimiglio/README.md

Table of Contents

  1. I’m currently working on the following scientific and software-development projects:
    1. Clonal Dynamics of Regenerating Muscle Stem Cells
    2. FiberSight: Semi-Automated Muscle Fiber Image Analysis
    3. Mapping Exercise Training To Exercise Performance

Hey there, you’ve found the place where you can figure out who I am.

Where I am on the internet:

My website

Image.sc

LinkedIn

About Me

I’m completing my Masters in Biomedical Engineering at the Rossi Lab at the University of British Columbia. I’m a long-time coach, occasional marathon runner, and computational biologist.

My technical software background.

  • Worked in Windows through my undergraduate, moved to Linux in 2020 (with some Mac). Most worthwhile technical choice I’ve ever made.
  • I use Manjaro (btw). Still not cool enough to be with the Arch crowd.
  • I started learning vim editing in 2021, but I was compelled to try Doom EMACS in 2023. Now I believe any editor can improved with Vim key-bindings, even CRISPR.
  • I’m now working in the realm of biological imaging and statistical analysis, mixed in with practicing machine learning using Python.
My software familiarity Technologies/Tools
I love these and use them regularly Python, R/RStudio, Tidyverse, Vim, DOOM Emacs, Linux, Manjaro, Spyder, VScode, Fiji/ImageJ, Bash, Shell-scripting, Conda, AUR, Org-mode
I like these and use them when appropriate Jupyter, HTML, Jython, Mac, Git/Github, Wordpress, ImageJ Macro, Napari, Tk/Tcl, Graphpad, Hugo, AWK
I’m learning more about these Tensorflow, Torch, Scikit-learn, Java, Rust, Lisp, Probablistic Programming (Blang/Stan), HTML/CSS, SQL
For better or worse, I know these MATLAB, Windows, MS Office

I’m currently working on the following scientific and software-development projects:

Clonal Dynamics of Regenerating Muscle Stem Cells

[Project: Transposon-Tracking] Leveraging Bayesian statistics to gain insight into muscle-progenitor renewal.

FiberSight: Semi-Automated Muscle Fiber Image Analysis

[Project: FiberSight] A fast Fiji-based platform which addresses the vexing problem of quickly segmenting, assessing, and measuring muscle fibers.

Mapping Exercise Training To Exercise Performance

[Project: Delta-Performance] The goal of coaching has always been to find the most effective ways to train.

Popular repositories Loading

  1. napari-easy-augment-batch-dl napari-easy-augment-batch-dl Public

    Forked from True-North-Intelligent-Algorithms/napari-easy-augment-batch-dl

    A plugin for deep learning labeling, augmenting, training and predicting on 2d image sets. Well suited for training specialist networks using a small number of labels.

    Python 3

  2. iconda iconda Public

    Lightweight GUI to create desktop icons that can manage conda/mamba environments

    Python 2

  3. SAMLab SAMLab Public

    Generating label images from SAM predictions

    Jupyter Notebook 1

  4. napari-segment-everything napari-segment-everything Public

    Forked from True-North-Intelligent-Algorithms/napari-segment-everything

    A Napari SAM plugin to segment everything in your image (not just some things)

    Python 1

  5. skeletal_muscle_toolbox skeletal_muscle_toolbox Public

    Distributing macros for scientific skeletal muscle imaging in ImageJ and Fiji.

    ImageJ Macro 1

  6. I2K_Deep_Learning_For_Biological_Segmentation I2K_Deep_Learning_For_Biological_Segmentation Public

    Developing a Workflow for Biological Instance Segmentation

    Python 1