juaco2r.github.io

Personal website and portfolio for digital pathology and medical image computing tools.

This site is hosted on GitHub Pages and showcases:

• Digital pathology utilities (TIFF/WSI handling, dataset downloaders, GUIs)
• Classical image processing pipelines (segmentation, feature extraction)
• Research context and future AI-ready roadmap

Website

• Live site: https://juaco2r.github.io

Structure

• index.html → Home
• tools/ → Tools listing + tool pages
• research/ → Research overview
• about/ → Background and skills
• contact/ → Contact links
• assets/ → CSS / JS / images
• downloads/ → PDFs (papers/posters) and other materials

Featured tools (examples)

• PathoImage Toolkit: Digital pathology and microscopy image utility for WSI preview, ROI cropping, tiling, reconstruction, downsampling, OME-TIFF, LIF and GeoJSON-aware workflows.
• HistoAnnotator (pre-release): Web and Android application for interactive WSI/microscopy annotation, QuPath-compatible GeoJSON and multichannel fluorescence visualization.
• HistoAnalyzer (pre-release): Cross-platform H-DAB analysis application with tissue/artifact classification, nuclei segmentation, compartment prediction and DAB quantification.
• HistRegGUI: Desktop GUI for histology image registration using DeeperHistReg presets (CPU-only).
• HPA Image Downloader: Download IHC cancer images from Human Protein Atlas and generate structured folders + CSV metadata.
• Cell Well Segmentation: Classical CV pipeline for instance segmentation + feature extraction from multi-channel fluorescence TIFF images.

Local development

You can edit the site using any editor (e.g., VS Code). To preview locally:

• Open index.html with a browser, or
• Use a simple local server:

Python (optional)

python -m http.server 8000