A world leader in empowering scientists with AI agentic tools.
K-Dense is an author whose skills equip AI agents for scientific and technical work, including extracting text and layout from PDF and Office files, converting documents to Markdown, building editable research posters and talk slides in PowerPoint, and running discrete-event simulations with SimPy. The catalogue also covers geospatial vector workflows with GeoPandas, querying public single-cell data through CZ CELLxGENE Census, and genomic-interval analysis with Geniml. A notable thread is attention to verification, with several skills running checks on print scale, contrast, reading order, and data compatibility before output is produced.
Scientific Agent Skills
177 skills · 56,317 stars · MIT
13C Metabolic Flux Estimates intracellular metabolic fluxes from steady-state carbon-13 isotope-tracing measurements…
Adaptyv Uses the Adaptyv Bio Foundry API and Python SDK to design protein characterization experiments, e…
Aeon This skill should be used for time series machine learning tasks including classification, regres…
Alphagenome Looks up precomputed AlphaGenome Atlas effects for any GRCh38 single-nucleotide variant (AVI scor…
Analytical Method Validation Plans, executes, and documents validation, verification, and transfer of analytical procedures un…
Anndata Handles annotated matrices in single-cell analysis, .h5ad and Zarr files, and integration with th…
Arbor Applies Arbor Hypothesis Tree Refinement to research artifacts with repeatable evaluators, includ…
Arboreto Infers candidate gene regulatory networks from bulk or single-cell expression data using AertsLab…
Astropy Core Python library for astronomy and astrophysics workflows that need Astropy APIs, including un…
Autoskill Analyzes user-requested Screenpipe history windows to detect repeated research workflows, match e…
Benchling Integration Benchling Python SDK and REST API integration for registry entities, inventory, ELN entries, work…
Bgpt Paper Search Searches BGPT scientific papers by topic or DOI and retrieves claim-level evidence extracted from…
Bids Organizes, queries, validates, and converts Brain Imaging Data Structure (BIDS) datasets.
Biopython Provides Biopython workflows for sequence manipulation, file parsing (FASTA/GenBank/PDB), phyloge…
Bioservices Provides a Python interface to bioinformatics services including UniProt, KEGG, ChEMBL, Reactome,…
Build scientific talk slides in PowerPoint and DeckCraft Structure, design, timing and visual checks for research talk slides in PowerPoint or DeckCraft
Bulk Rnaseq Prepares bulk RNA-seq FASTQ, Salmon, STAR or featureCounts output for gene-level differential exp…
Cantera Runs Cantera homogeneous chemical reactors and evaluates ignition delay with mechanism provenance…
Cellprofiler Runs reproducible CellProfiler microscopy pipelines for nuclear segmentation, cell counts, and pe…
Cellxgene Census Queries the CZ CELLxGENE Census programmatically for versioned public single-cell and spatial tra…
Cirq Google quantum computing framework.
Citation Management Comprehensive citation management for academic research.
Clinical Decision Support Prepares and validates research-only clinical decision-support evaluation, evidence-profile, coho…
Clinical Reports Creates safety-bounded draft structures and runs local deterministic checks for clinical case, di…
Cobrapy Performs constraint-based metabolic modeling with COBRApy, including FBA, pFBA, FVA, gene knockou…
Consciousness Council Structures a multi-perspective council exercise for decisions, research trade-offs, and creative…
Convert PDF files to Markdown in Python, like Acrobat and PdfCraft Turn PDFs, Word, PowerPoint and Excel files into Markdown for search and LLM use.
Create research posters in PowerPoint and DeckCraft .pptx files Generate audited, print-ready one-slide .pptx research posters from approved content
Dask Scales pandas, NumPy, and custom Python research workflows beyond memory or across clusters with…
Database Lookup Queries documented public database APIs with explicit endpoints, filters, pagination, and provena…
Datalad Retrieves, versions, and publishes scientific datasets with DataLad and git-annex, and captures c…
Datamol Pythonic wrapper around RDKit with simplified interface and sensible defaults.
Deepchem Builds molecular property prediction and MoleculeNet workflows with DeepChem, including SMILES fe…
Deepspot M Generates transcriptome-wide virtual spatial transcriptomics from H&E histology with DeepSpot-M.
Deeptools NGS analysis toolkit.
Depmap Retrieves and analyzes Cancer Dependency Map (DepMap) release data, including CRISPR Chronos gene…
Dhdna Profiler Applies the DHDNA framework as an exploratory rubric for reasoning and writing patterns in suppli…
Diffdock Predicts protein-small-molecule binding poses with DiffDock and DiffDock-L from PDB or sequence p…
Dnanexus Integration Builds and operates reproducible genomics workloads on DNAnexus with the dx CLI, dxpy, apps/apple…
Esm Uses the Biohub esm Python SDK for ESM3 protein generation, ESMC embeddings, and ESMFold2 all-ato…
Etetoolkit Analyzes, manipulates, compares, annotates, and visualizes phylogenetic or other hierarchical tre…
Exa Search Searches scientific and technical web content with Exa and extracts page or PDF text from URLs in…
Experimental Design Designs experiments and studies BEFORE data is collected — choosing a design, randomizing, blocki…
Exploratory Data Analysis Performs bounded, local exploratory analysis of explicitly supported scientific files.
Extract text from Acrobat and PdfCraft .pdf files with bounding boxes Local PDF and Word text extraction with bounding boxes, OCR, and page PNGs.
Fictiv Operates Fictiv (app.fictiv.com), the on-demand manufacturing platform, end to end in the user's…
Flowio Reads, inspects, and writes Flow Cytometry Standard (FCS) 2.0, 3.0, and 3.1 files with FlowIO.
Flowkit Analyzes flow cytometry data with FlowKit, including spillover compensation, logicle and biexpone…