Frederik Schulz

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

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

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

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

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

Search arXiv preprints and generate Markdown summaries from arXiv IDs.

Build marker gene alignments and phylogenetic trees efficiently.

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

Critically evaluate AI scientist outputs in biology and related fields.

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

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

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

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

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

Create and refactor reproducible analysis notebooks using Marimo or Jupyter.

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

Create interactive components for Marimo notebooks using anywidget.

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

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

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

Perform functional annotation and taxonomy inference from sequence homology.

Access genomics metadata and download genome files from JGI Lakehouse.

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

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

Generate reproducible Methods documentation from workflow run artifacts for bioinformatics.

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

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

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

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

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

Cluster proteins into orthogroups and derive pangenome matrices efficiently.

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

Assemble genomes and metagenomes while producing quality control artifacts.

Predict protein structures and annotate them based on structural data.

Evaluate scientific rigor and evidence quality for claims and studies.

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

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

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

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

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

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

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