Rachis MCP Server
Structured plugin metadata for the Rachis ecosystem
An MCP server exposing Rachis plugin and action metadata for software discovery and developer tooling.
Software Projects
A collection of open-source projects, interactive scientific tools, and Rachis ecosystem plugins.
Interactive Systems & AI Tools
AI-ready servers, interactive terminals, and metadata interfaces that help both users and developers explore, use, and build upon scientific software ecosystems.
Slurm Job Watcher
Real-time HPC monitoring
A CLI utility that monitors HPC job states and resource utilization in SLURM scheduler queues, providing structured metrics.
AI Developer Tooling for Rachis
AI agent skills for plugin authors
AI agent skills and patterns that help contributors implement, test, and document Rachis plugins consistently.
Rachis Cache Lens
Interactive TUI for exploring Rachis caches and artifacts
A terminal-based interface for exploring Rachis cache contents and inspecting artifact provenance.
Experimental Rust
Rachis Ecosystem Plugins
Open-source Python plugins extending the Rachis (formerly QIIME 2) computational biology framework to support reproducible metagenomics, quality control, functional annotation, and statistical analysis.
q2-annotate
Rachis plugin for functional metagenome annotation
Metagenomic annotation and binning suite wrapping tools to predict genes, assign functional profiles, reconstruct bins, and perform taxonomic classification.
q2-assembly
Rachis plugin for reproducible metagenome assembly workflows
Metagenomic assembly suite wrapping Megahit and SPAdes assembly engines, with integrated read mapping and QUAST quality assessment.
q2-deseq2
Rachis plugin for differential expression analysis using DESeq2
Bridges Python with R/DESeq2 to perform differential abundance and expression analysis on genomic feature counts.
q2-fastp
Rachis plugin for rapid adapter trimming and quality control
Integrates ultra-fast C++ sequence preprocessing tool fastp into Rachis workflows.
q2-humann3
Rachis integration for HUMAnN 3 metabolic profiling
Exposes HUMAnN 3 functional profiling capabilities within Rachis for metabolic pathway abundance and coverage calculations.
q2-subread
Rachis wrapper for the Subread software suite
A Python interface wrapping the Subread/featureCounts package to count genomic features and map reads inside Rachis.
Other Open-Source Projects
Personal tools and libraries built in my private time, spanning Swiss open data, personal metrics dashboards, and custom genomic API clients.
OpenERZ API
An open-source API Swiss recycling schedule data
A Python client for interacting with API providing structured access to waste collection schedules across Swiss cities.
Publibike Stations
Real-time bike sharing station monitoring
Python client for interacting with API of Swiss bike sharing network PubliBike, tracking bike availability in real-time.
NCBI Datasets Python Client
Custom Python interface for NCBI Datasets API
An unofficial Python client built using the OpenAPI specification provided by NCBI, designed to query, filter, and batch download genome assemblies and annotations.
Fitness Dial
An interactive dashboard for personal training and fitness metrics
A Python-based dashboard mapping data using Withings API and MyFitnessPal.
Selected Contributions
Open-source contributions to bioinformatics software distribution and smart home integration communities.
Bioconda recipes
Maintaining and contributing package metadata for bioinformatics utilities, ensuring robust and reproducible software distribution. View contributions →
Home Assistant
Developing custom integrations for the Home Assistant smart-home community. View contributions →