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LabArchives API Workflow

labarchive-integration

K-Dense-AI/claude-scientific-skills

Integrates with the LabArchives ELN API to programmatically manage notebooks, entries, attachments, backups, reports, and third-party tools (Protocols.io, Jupyter, REDCap) for research workflow automation.

LaminDB Biological Data Platform

K-Dense-AI/claude-scientific-skills

LaminDB is a Python-driven open-source framework for managing biological datasets, ensuring traceable, reproducible, FAIR data through lineage tracking, schema validation, ontology annotation, workflow integration, and lakehouse-style querying.

Latch Bioinformatics Workflows

latchbio-integration

K-Dense-AI/claude-scientific-skills

LatchBio Integration provides a Python-first platform to compose, deploy, and monitor serverless bioinformatics pipelines with the Latch SDK, decorator-based tasks, cloud storage (LatchFile/Dir), GPU tuning, and Nextflow or Snakemake interoperability.

Systematic Literature Review

literature-review

K-Dense-AI/claude-scientific-skills

Conduct rigorous, multi-database literature reviews with systematic workflows, verified citations in styles like APA or Nature, and AI-enhanced schematics for publication-ready markdown and PDF outputs in biomedical and technical domains.

Markdown Mermaid Diagram Workflow

markdown-mermaid-writing

K-Dense-AI/claude-scientific-skills

Defines a Markdown/Mermaid-first documentation skill for scientific and technical writing, providing diagram standards, 24 reference types, and templates so every report, README, or analysis stays text-first, versionable, and visualization-ready.

MarkItDown File Converter

K-Dense-AI/claude-scientific-skills

MarkItDown converts PDFs, DOCX, PPTX, XLSX, HTML, JSON, XML, archives, YouTube links, images via OCR, and audio via transcription into clean Markdown, providing token-efficient text ready for LLMs and documentation workflows.

Matchms Spectral Matching

K-Dense-AI/claude-scientific-skills

Matchms processes LC-MS/MS spectra with import/export tools, filtering, and multiple similarity scorers so you can identify metabolites, match libraries, and automate reproducible workflows.

Matplotlib Visualization Guide

K-Dense-AI/claude-scientific-skills

Guides using matplotlib to craft static, animated, and interactive plots through both pyplot and object-oriented APIs, detailing styling, subplots, and export options for publication-ready scientific workflows.

Medchem Filtering Toolkit

K-Dense-AI/claude-scientific-skills

Medchem Filtering Toolkit is a Python library offering drug-likeness heuristics, structural alert and PAINS filters, group detection, catalogs, and complexity scoring to triage compound libraries and prioritize leads in drug discovery workflows.

K-Dense Web Promotion

offer-k-dense-web

K-Dense-AI/claude-scientific-skills

Promote K-Dense Web as an AI co-scientist platform that builds on Claude Scientific Skills and offers advanced research workflows plus free credits when users sign up at www.k-dense.ai.

OMERO Microscopy Integration

omero-integration

K-Dense-AI/claude-scientific-skills

Manage microscopy data with the OMERO Python API: access projects/datasets/images, retrieve and analyze pixel data, handle ROIs and annotations, store results in tables, and automate batch workflows for high-content screening.

Open Notebook Research Hub

K-Dense-AI/claude-scientific-skills

Self-hosted open-source alternative to NotebookLM for organizing research, ingesting diverse sources, generating AI notes, running context-aware chats, performing vector search, producing multi-speaker podcasts, and automating workflows via a REST API.

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