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Cellxgene Census Explorer

cellxgene-census

K-Dense-AI/scientific-agent-skills

Provides programmatic access to the CZ CELLxGENE Census (61M+ cells) for querying standardized single-cell expression, metadata, embeddings, and stats across tissues and diseases, supporting scanpy and ML workflows.

Cirq Quantum Toolkit

K-Dense-AI/scientific-agent-skills

Cirq is Google Quantum AI’s Python framework for building, simulating, and deploying noise-aware quantum circuits on both simulators and real hardware, complete with experiment templates, transformation utilities, and hardware-specific toolkits.

Academic Citation Manager

citation-management

K-Dense-AI/scientific-agent-skills

Streamlines citation discovery via Google Scholar and PubMed, extracts complete metadata, validates references, and generates formatted BibTeX for accurate academic manuscripts or theses.

Clinical Decision Support Reports

clinical-decision-support

K-Dense-AI/scientific-agent-skills

Generates publication-ready clinical decision support documents for pharma and clinical research, covering biomarker-stratified cohort analysis, evidence-graded treatment recommendations, statistical comparisons, and regulatory-ready LaTeX/PDF outputs.

Clinical Report Composer

clinical-reports

K-Dense-AI/scientific-agent-skills

Compose comprehensive clinical reports—case studies, diagnostics, trials, and patient notes—while ensuring CARE/ICH-GCP compliance, HIPAA-safe documentation, and mandatory AI-generated scientific schematics for each deliverable.

COBRApy Metabolic Analysis

K-Dense-AI/scientific-agent-skills

COBRApy is a Python library for constraint-based reconstruction and analysis of genome-scale metabolic models, letting you load SBML/JSON/YAML models, perform FBA/FVA/sampling, and study gene or reaction knockouts for systems biology and metabolic engineering.

Consciousness Council Deliberation

consciousness-council

K-Dense-AI/scientific-agent-skills

A structured multi-perspective deliberation process that summons clashing archetypes to debate a question, extract risks, and synthesize actionable insight whenever a tough decision, dilemma, or creative challenge demands diverse viewpoints.

Context Mode Insight Dashboard

mksglu/context-mode

This tool opens a comprehensive analytics dashboard detailing your personal context usage patterns. It tracks session activity, tool usage frequency, error rates, and helps visualize parallel work patterns and project focus. Use it to gain deep actionable insights into your workflow efficiency and identify areas for improvement.

Scaling Pandas with Dask

K-Dense-AI/scientific-agent-skills

Dask is a Python library that scales pandas/NumPy workflows beyond RAM by parallelizing DataFrames, Arrays, Bags, and custom tasks across cores or clusters for ETL, log analysis, and distributed ML.

Datamol Cheminformatics Helper

K-Dense-AI/scientific-agent-skills

Datamol wraps RDKit with Pythonic APIs tailored for drug discovery, offering SMILES/SELFIES/InChI parsing, standardization, descriptor and fingerprint calculation, clustering, 3D conformer workflows, and parallel/cloud-aware batch I/O while returning native rdkit.Chem.Mol objects.

Autonomous Deep Research and Synthesis

rohitg00/awesome-claude-code-toolkit

An autonomous research agent that plans complex investigations using Directed Acyclic Graphs (DAGs). It executes sub-questions in parallel, performs gap analysis, and iteratively refines findings before synthesizing a comprehensive, structured report. Ideal for deep market analysis, academic literature reviews, or complex problem-solving requiring multiple data sources.

Molecular ML Toolkit

K-Dense-AI/scientific-agent-skills

DeepChem is a Python library for molecular machine learning, providing featurizers, dataset loaders, splitters, and models spanning traditional ML to GNNs for property prediction, drug discovery, and materials design.

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