Frederik Schulz

Expert computational biologist for omics workflows including QC, assembly, and phylogenomics.

Create marimo notebooks using Python with a simple and structured format.

Create polished, publication-quality visualizations using matplotlib and seaborn.

Conduct a comprehensive multi-agent review of scientific manuscripts with specialized reviewers and editor oversight.

Run a Codex-native planning and implementation loop with progress tracking and failure memory.

Search the PMC Open Access literature using structured JSON queries with polars-dovmed.

CodexLoop is a plan-driven orchestration agent for executing and tracking implementation tasks.

Easily add 'Open in molab' badges linking to marimo notebooks in markdown or HTML.

Create interactive components for Marimo notebooks using anywidget.

Assess the impact of academic papers and journals using citation counts and impact factors.

Expert data visualization specialist for creating publication-quality figures and dashboards.

Create and refactor reproducible analysis notebooks using Marimo or Jupyter.

Expert agent for literature discovery, citation metadata, and evidence-based search triage.

Search arXiv preprints and generate Markdown summaries from arXiv IDs.

Automatically implement research papers in a marimo notebook without user input.

Build marker gene alignments and phylogenetic trees efficiently.

Perform functional annotation and taxonomy inference from sequence homology.

Access genomics metadata and download genome files from JGI Lakehouse.

Critically evaluate AI scientist outputs in biology and related fields.

Streamline the drafting and revision of scientific manuscripts with a structured multi-agent workflow.

Query the Crossref REST API for DOI validation and citation metadata management.

Structured review framework for evaluating AI/ML and bioscience proposals.

Convert Jupyter notebooks (.ipynb) into marimo notebooks (.py) efficiently.

Track and reconcile taxonomy updates from multiple authoritative sources with versioned provenance.

Initialize a bioinformatics project scaffold with reproducible environments and data cataloging.

Call genes and annotate features for prokaryotes, viruses, and eukaryotes.

A collection of agents and skills for bioinformatics and data visualization.

Expert scientific writer and editor for high-quality manuscripts and peer reviews.

Automate web interactions with the agent-browser CLI for tasks like scraping and UI testing.

Quickly fetch the latest API and SDK documentation using the chub CLI.

Perform metagenomic binning, refinement, and quality control with completeness and contamination checks.

Cluster proteins into orthogroups and derive pangenome matrices efficiently.

Assemble genomes and metagenomes while producing quality control artifacts.

Design and scaffold bioinformatics pipelines using Prefect+Dask or Nextflow for efficient execution.

Ingest, QC, and map reads with reproducible outputs for raw read processing.

Aggregate results, train ML models, and produce validated reports.

Predict protein structures and annotate them based on structural data.

Detect, classify, and perform quality control on viral contigs efficiently.

Generate reproducible Methods documentation from workflow run artifacts for bioinformatics.

Create production-ready Plotly Dash dashboards with consistent theming and clear layouts.

Evaluate scientific rigor and evidence quality for claims and studies.

Search bioRxiv preprints using the official API for recent biology research.