Projects on Rachid Youven Zeghlache

MedFlowAssist

Sun, 01 Feb 2026 00:00:00 +0000

Overview

MedFlowAssist is a multi-agent medical assistant that combines the power of MedGemma, medical speech recognition (MedASR), and LiteLLM to deliver clinical-grade AI assistance across a wide range of healthcare workflows.

Key Features

13 clinical workflows covering documentation, triage, diagnosis support, and more
12 pre-built scenarios ready to deploy out of the box
Voice dictation via MedASR for hands-free clinical note-taking
Multimodal input — image, PDF, and CSV upload supported
Multi-agent orchestration with LangGraph-style task delegation

Clinical Workflows

The assistant covers end-to-end workflows including:

D2 Ink — D2 Architecture Diagrams for Inkscape

Thu, 01 Jan 2026 00:00:00 +0000

Overview

D2 Ink integrates the D2 diagram language into Inkscape. D2 produces beautiful, automatically-laid-out architecture diagrams, entity-relationship diagrams, and software design maps from a declarative text syntax.

Why D2?

D2’s automatic layout engine (powered by ELK, Dagre, or TALA) produces publication-quality diagrams without manual positioning. Combined with Inkscape’s SVG editing capabilities, D2 Ink is perfect for creating and then polishing technical architecture figures for papers and presentations.

Example

User -> API Gateway -> Auth Service
API Gateway -> Business Logic
Business Logic -> Database

Installation

git clone https://github.com/YouvenZ/D2_ink

Requires D2 CLI to be on your PATH.

ImageGen Ink — AI Image Generator for Inkscape

Thu, 01 Jan 2026 00:00:00 +0000

Overview

ImageGen Ink adds AI image generation to Inkscape’s toolset. Describe an image in natural language, choose a backend (Stable Diffusion, DALL·E 3, Flux), and the result is embedded as an SVG <image> element on your canvas — ready to be combined with vector elements.

Backends supported

Stable Diffusion (local via Automatic1111 or ComfyUI API)
DALL·E 3 (OpenAI API)
Flux (via Replicate or local)

Typical workflow

Open a new layer in Inkscape for raster assets
Run Extensions → ImageGen Ink → Generate
Type your prompt (e.g. “microscopy image of retinal fundus, professional photo”)
Choose resolution and backend
Image is placed on canvas; scale and position as needed

Installation

git clone https://github.com/YouvenZ/Imagegen_ink

Inkscape Extensions Suite

Thu, 01 Jan 2026 00:00:00 +0000

Overview

A suite of 8 open-source Inkscape extensions designed for researchers and technical creators who want to stay inside their SVG workflow without switching to external tools.

Each extension is independently installable and integrates natively into Inkscape’s Extensions menu.

Extensions

Diagram Generation

SVG Maker — Generate SVG elements from natural language prompts using an LLM, directly inside Inkscape.
Mermaid Ink — Render Mermaid.js diagrams (flowcharts, sequence diagrams, Gantt charts) as native SVG inside Inkscape.
D2 Ink — Write and render D2 architecture diagrams and entity-relationship diagrams as editable SVG.

AI-Assisted Content

TextGen Ink — Generate, rewrite, or refine text elements using an LLM — captions, labels, descriptions — without leaving Inkscape.
ImageGen Ink — Generate AI images (Stable Diffusion, DALL·E, Flux) from text prompts as embedded SVG elements.

Scientific & Data Visualisation

Plt Ink — Write Python Matplotlib code and render publication-quality figures as native SVG directly inside Inkscape.
Poster Utils Ink — Auto-generate formatted title blocks, author lists, and institution panels for academic conference posters.

Academic Reference

LoadRefs Ink — Import bibliography files (.bib, .ris, .json, .enw) and place formatted citations as editable SVG text inside Inkscape.

Installation

Each extension follows the standard Inkscape extension installation process:

LoadRefs Ink — Bibliography Import for Inkscape

Thu, 01 Jan 2026 00:00:00 +0000

Overview

LoadRefs Ink solves the citation formatting problem in Inkscape posters and presentations. Import your .bib, .ris, or .json bibliography file, choose a citation style (APA, IEEE, Vancouver, custom), and insert formatted references as native SVG text elements — no copy-paste, no manual formatting.

Supported input formats

Format	Extension
BibTeX	`.bib`
RIS	`.ris`
CSL-JSON	`.json`
Endnote XML	`.enw`

Citation styles

APA 7th edition
IEEE
Vancouver (numerical, for biomedical)
Nature
Custom CSL template support

Workflow

Run Extensions → LoadRefs Ink → Insert References
Browse to your .bib file
Select entries from the parsed list
Choose citation style
Click Insert — references are placed as a text group at the bottom of your canvas

Installation

git clone https://github.com/YouvenZ/Loadrefs_Ink
pip install pybtex citeproc-py

Mermaid Ink — Mermaid Diagrams for Inkscape

Thu, 01 Jan 2026 00:00:00 +0000

Overview

Mermaid Ink brings Mermaid.js diagram syntax directly into Inkscape. Write a flowchart, sequence diagram, Gantt chart, or entity-relationship diagram in Mermaid’s plain-text syntax and render it as fully editable SVG — no browser, no external service.

Supported diagram types

Flowcharts (graph TD, graph LR)
Sequence diagrams
Gantt charts
Entity-relationship diagrams
Class diagrams
State diagrams

Installation

git clone https://github.com/YouvenZ/mermaid_ink

Requires the Mermaid CLI (npm install -g @mermaid-js/mermaid-cli).

Plt Ink — Matplotlib Figures for Inkscape

Thu, 01 Jan 2026 00:00:00 +0000

Overview

Plt Ink embeds a Python/Matplotlib code editor inside Inkscape. Write your figure code, hit render, and the resulting SVG is placed on your canvas as a native, fully editable SVG group — not a rasterised image.

Why native SVG matters

Unlike exporting a PNG from Jupyter and importing it, Plt Ink produces editable SVG: individual lines, bars, and labels are XML elements you can select, recolour, or reposition in Inkscape without going back to Python.

Poster Utils Ink — Academic Poster Generator for Inkscape

Thu, 01 Jan 2026 00:00:00 +0000

Overview

Poster Utils Ink automates the most tedious parts of academic poster creation. Fill in your title, authors, affiliations, and abstract — and the extension generates a properly formatted header block, author list with superscript affiliation numbers, and institution row, all placed on the Inkscape canvas at the correct position and typography.

Features

Title block at A0/A1/custom poster dimensions
Author list with numbering, affiliations, and equal-contribution markers
Institution row with logo placeholder slots
Abstract section with proper typographic treatment
One-click update: change any field and re-render in place

Typical workflow

For a MICCAI or NeurIPS poster:

SVG Maker — AI SVG Generator for Inkscape

Thu, 01 Jan 2026 00:00:00 +0000

Overview

SVG Maker is an Inkscape extension that lets you describe any diagram, icon, or figure in plain English and have an LLM generate the corresponding SVG code, which is then inserted directly into your Inkscape canvas.

Features

Natural language → SVG generation powered by GPT-4, Claude, or any OpenAI-compatible API
Iterative refinement: describe changes to the selected SVG element to modify it
Preview before insertion
Works with any Inkscape 1.x installation

Installation

git clone https://github.com/YouvenZ/svg_maker_ink
# Copy to your Inkscape extensions folder
# Linux: ~/.config/inkscape/extensions/
# Windows: %APPDATA%\inkscape\extensions\

Requirements

Inkscape 1.x
Python 3.8+
OpenAI / Anthropic API key (set in extension preferences)

TextGen Ink — AI Text Generator for Inkscape

Thu, 01 Jan 2026 00:00:00 +0000

Overview

TextGen Ink is an Inkscape extension that connects any text element on your canvas to a large language model. Select a text frame, choose an operation, and let the LLM generate, rewrite, summarise, or translate your content in-place.

Use cases

Caption generation: select a figure and generate a descriptive caption
Label refinement: improve the phrasing of axis labels or legend entries
Abstract writing: generate a draft abstract from a set of bullet points
Translation: translate all text elements in a scientific poster to another language

Supported operations

Mode	Description
Generate	Write new text from a prompt
Rewrite	Paraphrase or improve selected text
Summarise	Condense long text to a shorter form
Translate	Translate to a target language

Installation

git clone https://github.com/YouvenZ/textgen_ink

Auto Publication List

Sun, 01 Jun 2025 00:00:00 +0000

Overview

Auto Publication List is a lightweight automation pipeline that keeps your publication list up to date without manual intervention. It fetches your Google Scholar profile export and generates both a BibTeX bibliography file and a LaTeX metrics snippet.

How It Works

Fetch — Downloads your Google Scholar export (BibTeX-like text) using your Scholar user ID
Parse — Cleans and normalises the entries into valid BibTeX format
Metrics — Extracts citation counts, h-index, and i10-index and writes them to metrics.tex
Export — Outputs publications.bib ready to include in any LaTeX document

Usage

from update_publications import fetch_scholar_publications

# Fetch and export
fetch_scholar_publications(user_id="YOUR_SCHOLAR_ID", output_dir="./output")

GitHub Actions Integration

Add the workflow to your repository to run on a schedule:

MARIO AMD Progression Challenge

Sun, 01 Sep 2024 00:00:00 +0000

Overview

The MARIO AMD Progression Challenge was held at MICCAI 2024 and focused on the automated assessment of Age-related Macular Degeneration (AMD) progression using deep learning.

We are pleased to announce the publication of our comprehensive analysis of the challenge results, and the corresponding dataset is now publicly available for the research community.

Research Focus

This challenge addressed two key clinical questions:

Progression prediction: Will a patient’s AMD progress over the next 12 months?
Visual acuity change: Will the patient’s visual acuity improve, stabilise, or worsen?

Dataset

The MARIO dataset provides: