A modern open-source platform that transforms bioinformatics workflow outputs into interactive dashboards.
Build, share, and explore data visualizations with or without writing code.

Workflow Ecosystem

Connect with standardized bioinformatics workflows from various platforms.

Snakemake Workflow Catalog

Dashboard Components

Build powerful dashboards with a rich library of interactive components.

Figure

Scatter, bar, box, histogram, line plots and more with Plotly

Table

Interactive AG Grid tables with filtering, sorting, and export

Card

Metric cards with aggregations (count, sum, mean, min, max)

Interactive

Filters with sliders, dropdowns, and date pickers

MultiQC

Quality control reports embedded in dashboards

Image

Image galleries with S3/MinIO storage integration

Live interactive demo - Try it!

The demo is running an "unauthenticated mode" to allow anyone to try it out without needing an account. However, you can create a temporary account to create your own projects and upload datasets.

Note: Accounts and related data will be reset after 1 hour to keep the demo environment clean.

Get started with Depictio

Try Demo Directly Open in Codespaces Install Locally

Live Demo

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Project Overview

The Challenge

Bioinformatics researchers face significant challenges managing and analyzing large-scale datasets from production workflows. Despite numerous available tools, there's a notable absence of platforms designed for seamless integration with production workflows.

Our Solution

Depictio addresses this gap with a generic, centralized platform that integrates workflow output data to build interactive dashboards. It provides scalable, flexible, and open-source solutions for researchers handling large datasets from any execution engine (Nextflow, Snakemake, Galaxy, R, etc.).

Why Depictio?

No Code Required

Create interactive dashboards without writing code. Drag and drop components, configure visualizations through the UI.

Workflow Integration

Connect directly to Nextflow, Snakemake, Galaxy outputs. Automatically ingest results from production pipelines.

Shareable & Reproducible

Export dashboards as YAML for version control. Share with collaborators, deploy across environments.

Real-time Exploration

Filter and interact with data in real-time. Cross-filter between components for deep data exploration.

Key Features

Data Ingestion

• Client-side processing: Depictio-CLI scans and processes data locally, pushing results to S3
• Multiple formats: Support for Parquet, CSV, JSON, TSV using Polars and Delta Lake
• Automatic aggregation: Combine files across workflow runs into unified datasets
• MultiQC integration: Seamless QC report visualization with dedicated components

Frontend & Visualization

• Drag-and-drop dashboards: Build layouts visually without coding
• Cross-component filtering: Interactive filters affect all linked visualizations
• Code Mode: Write custom Python/Plotly code for advanced visualizations
• Project organization: Group dashboards by projects with user permissions

System & Infrastructure

• Cloud-ready: Built for Kubernetes and Docker-Compose environments
• YAML Dashboard Sync: Import and export dashboards as human-readable YAML files for version control and Infrastructure-as-Code workflows
• S3/MinIO Storage: Scalable object storage for data files and images
• Delta Lake: ACID transactions and versioned data tables
• Open-source: Community-driven development with transparent deployment

Getting Started

Ready to get started with Depictio?

Docker Compose

Quickest way to get started

Recommended

Kubernetes

For production environments

Production

CLI Tools

For data ingestion and management

Tools

Funding

Depictio is developed with the support of academic and public funding, enabling us to provide a free and open-source platform for the bioinformatics community.

Marie Skłodowska-Curie Grant

This project has received funding from the European Union's Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 945405

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ARISE Programme

ARISE is a postdoctoral research programme for technology developers, hosted at EMBL.

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EMBL

The European Molecular Biology Laboratory is Europe's flagship laboratory for the life sciences.

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Academic Partners

SciLifeLab Data Centre

SciLifeLab Data Centre provides data-driven life science research infrastructure and expertise to accelerate open science in Sweden and beyond.

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