Skill
Data
adaptyv
How to use the Adaptyv Bio Foundry API and Python SDK for protein experiment design, submission, and results retrieval. Use this skill whenever the user…
@k-dense-aiView SkillClaude Code Data skills :)
Flowy lists 196 skills in the Data category for Claude Code, across 4 plugins. A skill is a folder of instructions an agent loads while you work. Every one here shows what is inside before you install, who wrote it, and whether it is Auto-invoked, meaning a FLOW.md router fires it as you prompt.
Showing 96 of 196
@k-dense-aiView SkillSkill
Data
skill-builder
Automatically detect source types and build AI skills using Skill Seekers. Use when the user wants to create skills from documentation, repos, PDFs, videos, or…
@yusufkaraaslanView SkillSkill
Data
hf-cli
Hugging Face Hub CLI (`hf`) for downloading, uploading, and managing models, datasets, spaces, buckets, repos, papers, jobs, and more on the Hugging Face Hub.…
@huggingfaceView SkillSkill
Data
design-postgis-tables
Comprehensive PostGIS spatial table design reference covering geometry types, coordinate systems, spatial indexing, and performance patterns for location-based…
@timescaleView SkillSkill
Data
aeon
This skill should be used for time series machine learning tasks including classification, regression, clustering, forecasting, anomaly detection,…
@k-dense-aiView SkillSkill
Data
skill-seekers
Automatically detect source types and build AI skills using Skill Seekers. Use when the user wants to create skills from documentation, repos, PDFs, videos, or…
@yusufkaraaslanView SkillSkill
Data
hf-cloud-aws-context-d…
Discover the user's local AWS context (active profile, region, account ID, caller identity) at the start of any AWS task. Use this skill before any other AWS…
@huggingfaceView SkillSkill
Data
design-postgres-tables
Use this skill for general PostgreSQL table design. **Trigger when user asks to:** - Design PostgreSQL tables, schemas, or data models when creating new tables…
@timescaleView SkillSkill
Data
analytical-method-vali…
Plan, execute, and document validation, verification, and transfer of analytical procedures under the governing framework - ICH Q2(R2) and Q14, USP…
@k-dense-aiView SkillSkill
Data
hf-cloud-python-env-se…
Set up an isolated Python environment for SageMaker / AWS work, with the right Python version and current boto3. Use this skill whenever Python code will be…
@huggingfaceView SkillSkill
Data
find-hypertable-candid…
Use this skill to analyze an existing PostgreSQL database and identify which tables should be converted to Timescale/TimescaleDB hypertables. **Trigger when…
@timescaleView SkillSkill
Data
anndata
Data structure for annotated matrices in single-cell analysis. Use when working with .h5ad files or integrating with the scverse ecosystem. This is the data…
@k-dense-aiView SkillSkill
Data
hf-cloud-sagemaker-dep…
Plan and coordinate the deployment of a model to Amazon SageMaker AI. Use this skill whenever the user wants to deploy, host, serve, or expose a model on…
@huggingfaceView SkillSkill
Data
ghost-database
Use this skill for persistent PostgreSQL storage in agent workflows — spin up databases on demand, test schema migrations safely on forks, and pass databases…
@timescaleView SkillSkill
Data
arbor
Autonomously improve a real artifact (code, training recipe, agent harness, data pipeline, prompt) against an objective and an evaluator, using Hypothesis Tree…
@k-dense-aiView SkillSkill
Data
hf-cloud-sagemaker-iam…
Ensure a usable SageMaker execution role exists before deploying or training. Use this skill whenever about to create a SageMaker endpoint, model, training…
@huggingfaceView SkillSkill
Data
migrate-postgres-table…
Use this skill to migrate identified PostgreSQL tables to Timescale/TimescaleDB hypertables with optimal configuration and validation. **Trigger when user asks…
@timescaleView SkillSkill
Data
arboreto
Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data (bulk…
@k-dense-aiView SkillSkill
Data
hf-cloud-sagemaker-pro…
Create a SageMaker endpoint (real-time or async) with autoscaling, CloudWatch alarms, and tagging enabled by default. Use this skill whenever about to create a…
@huggingfaceView SkillSkill
Data
pgvector-semantic-sear…
Use this skill for setting up vector similarity search with pgvector for AI/ML embeddings, RAG applications, or semantic search. **Trigger when user asks to:**…
@timescaleView SkillSkill
Data
astropy
Core Python library for astronomy and astrophysics workflows that need Astropy APIs, including units/quantities, coordinates, FITS I/O, tables, time systems,…
@k-dense-aiView SkillSkill
Data
hf-cloud-serving-image…
Pick the right serving container for a SageMaker model deployment and find its current image URI. Use this skill whenever about to deploy a model to a…
@huggingfaceView SkillSkill
Data
postgres
Use this skill for any PostgreSQL database work — table design, indexing, data types, constraints, extensions (pgvector, PostGIS, TimescaleDB), search, and…
@timescaleView SkillSkill
Skill
Data
hf-mcp
Use Hugging Face Hub via MCP server tools. Search models, datasets, Spaces, papers. Get repo details, fetch documentation, run compute jobs, and use Gradio…
@huggingfaceView SkillSkill
Data
postgres-database-migr…
Use this skill for planning, testing, and safely executing PostgreSQL schema migrations — especially when working with production data or shared databases.…
@timescaleView SkillSkill
Skill
Data
hf-mem
Hugging Face CLI to estimate the required memory to load Safetensors or GGUF model weights for inference from the Hugging Face Hub
@huggingfaceView SkillSkill
Data
postgres-hybrid-text-s…
Use this skill to implement hybrid search combining BM25 keyword search with semantic vector search using Reciprocal Rank Fusion (RRF). **Trigger when user…
@timescaleView SkillSkill
Data
bgpt-paper-search
Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server. Returns 25+ fields per paper…
@k-dense-aiView SkillSkill
Data
huggingface-best
Use when the user asks about finding the best, top, or recommended model for a task, wants to know what AI model to use, or wants to compare models by…
@huggingfaceView SkillSkill
Data
setup-timescaledb-hype…
Use this skill when creating database schemas or tables for Timescale, TimescaleDB, TigerData, or Tiger Cloud, especially for time-series, IoT, metrics,…
@timescaleView SkillSkill
Data
bids
Use this skill when working with Brain Imaging Data Structure (BIDS) datasets: organizing neuroscience and biomedical data (MRI, EEG, MEG, iEEG, PET,…
@k-dense-aiView SkillSkill
Data
huggingface-community-…
Run evaluations for Hugging Face Hub models using inspect-ai and lighteval on local hardware. Use for backend selection, local GPU evals, and choosing between…
@huggingfaceView SkillSkill
Skill
Data
huggingface-datasets
Use this skill for Hugging Face Dataset Viewer API workflows that fetch subset/split metadata, paginate rows, search text, apply filters, download parquet…
@huggingfaceView SkillSkill
Skill
Data
huggingface-gradio
Build Gradio web UIs and demos in Python. Use when creating or editing Gradio apps, components, event listeners, layouts, or chatbots.
@huggingfaceView SkillSkill
Data
bulk-rnaseq
End-to-end bulk RNA-seq orchestrator — takes raw FASTQ reads through QC and trimming (FastQC, fastp/Trim Galore), alignment and quantification (STAR, Salmon,…
@k-dense-aiView SkillSkill
Data
huggingface-llm-traine…
Train or fine-tune language and vision models using TRL (Transformer Reinforcement Learning) or Unsloth with Hugging Face Jobs infrastructure. Covers SFT, DPO,…
@huggingfaceView SkillSkill
Data
cellxgene-census
Query the CZ CELLxGENE Census programmatically for versioned public single-cell and spatial transcriptomics data. Use when you need population-scale cell…
@k-dense-aiView SkillSkill
Data
huggingface-local-mode…
Use to select models to run locally with llama.cpp and GGUF on CPU, Mac Metal, CUDA, or ROCm. Covers finding GGUFs, quant selection, running servers, exact…
@huggingfaceView SkillSkill
Data
cirq
Google quantum computing framework. Use when targeting Google Quantum AI hardware, designing noise-aware circuits, or running quantum characterization…
@k-dense-aiView SkillSkill
Data
huggingface-lora-space…
Build and publish a Gradio demo on Hugging Face Spaces for a user-provided LoRA. Use when someone asks to create, generate, ship, or publish a Space, demo,…
@huggingfaceView SkillSkill
Skill
Data
huggingface-paper-publ…
Publish and manage research papers on Hugging Face Hub. Supports creating paper pages, linking papers to models/datasets, claiming authorship, and generating…
@huggingfaceView SkillSkill
Data
clinical-decision-supp…
Prepare and validate research-only clinical decision-support evaluation, evidence-profile, cohort, survival, biomarker/model, privacy, and governance…
@k-dense-aiView SkillSkill
Data
huggingface-papers
Look up and read Hugging Face paper pages in markdown, and use the papers API for structured metadata such as authors, linked models/datasets/spaces, Github…
@huggingfaceView SkillSkill
Data
clinical-reports
Create safety-bounded draft structures and run local deterministic checks for clinical case, diagnostic, trial, safety, and aggregate research reports. Use…
@k-dense-aiView SkillSkill
Data
huggingface-spaces
Build, deploy, and maintain applications on Hugging Face Spaces — Gradio / Docker / Static SDKs, ZeroGPU and dedicated hardware, model loading, debugging,…
@huggingfaceView SkillSkill
Data
cobrapy
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
@k-dense-aiView SkillSkill
Data
huggingface-tool-build…
Use this skill when the user wants to build tool/scripts or achieve a task where using data from the Hugging Face API would help. This is especially useful…
@huggingfaceView SkillSkill
Data
consciousness-council
Run a multi-perspective Mind Council deliberation on any question, decision, or creative challenge. Use this skill whenever the user wants diverse viewpoints,…
@k-dense-aiView SkillSkill
Data
huggingface-trackio
Track and visualize ML training experiments with Trackio. Use when logging metrics during training (Python API), firing alerts for training diagnostics, or…
@huggingfaceView SkillSkill
Data
dask
Distributed computing for larger-than-RAM pandas/NumPy workflows. Use when you need to scale existing pandas/NumPy code beyond memory or across clusters. Best…
@k-dense-aiView SkillSkill
Data
huggingface-vision-tra…
Trains and fine-tunes vision models for object detection (D-FINE, RT-DETR v2, DETR, YOLOS), image classification (timm models — MobileNetV3, MobileViT, ResNet,…
@huggingfaceView SkillSkill
Data
database-lookup
Query documented public database APIs with explicit endpoints, filters, pagination, and provenance. Use when a scientific, regulatory, financial, or other…
@k-dense-aiView SkillSkill
Data
huggingface-zerogpu
AI demos and GPU compute with Gradio Spaces and Hugging Face Spaces ZeroGPU. Use when writing or reviewing code that uses `@spaces.GPU`, configuring…
@huggingfaceView SkillSkill
Data
datamol
Pythonic wrapper around RDKit with simplified interface and sensible defaults. Preferred for standard drug discovery including SMILES parsing, standardization,…
@k-dense-aiView SkillSkill
Data
train-sentence-transfo…
Train or fine-tune sentence-transformers models across `SentenceTransformer` (bi-encoder; dense or static embedding model; for retrieval, similarity,…
@huggingfaceView SkillSkill
Data
deepchem
Molecular ML with diverse featurizers and pre-built datasets. Use for property prediction (ADMET, toxicity) with traditional ML or GNNs when you want extensive…
@k-dense-aiView SkillSkill
Data
transformers-js
Use Transformers.js to run state-of-the-art machine learning models directly in JavaScript/TypeScript. Supports NLP (text classification, translation,…
@huggingfaceView SkillSkill
Data
deeptools
NGS analysis toolkit. BAM to bigWig conversion, QC (correlation, PCA, fingerprints), heatmaps/profiles (TSS, peaks), for ChIP-seq, RNA-seq, ATAC-seq…
@k-dense-aiView SkillSkill
Data
trl-training
Train and fine-tune transformer language models using TRL (Transformers Reinforcement Learning). Supports SFT, DPO, GRPO, KTO, RLOO and Reward Model training…
@huggingfaceView SkillSkill
Data
depmap
Query the Cancer Dependency Map (DepMap) for cancer cell line gene dependency scores (CRISPR Chronos), drug sensitivity data, and gene effect profiles. Use for…
@k-dense-aiView SkillSkill
Data
dhdna-profiler
Extract cognitive patterns and thinking fingerprints from any text. Use this skill when the user wants to analyze how someone thinks, understand cognitive…
@k-dense-aiView SkillSkill
Data
diffdock
DiffDock and DiffDock-L molecular docking. Use for protein-small-molecule pose prediction from PDB or sequence plus SMILES/SDF/MOL2, batch docking, virtual…
@k-dense-aiView SkillSkill
Data
dnanexus-integration
Build and operate reproducible genomics workloads on DNAnexus with the dx CLI, dxpy, apps/applets, native workflows, dxCompiler, and Nextflow. Use for DNAnexus…
@k-dense-aiView SkillSkill
Data
docx
Use this skill whenever the user wants to create, read, edit, or manipulate Word documents (.docx files) or Word templates (.dotx files). Triggers include: any…
@k-dense-aiView SkillSkill
Data
esm
Use when working directly with the `esm` Python SDK, ESM3 or ESMC model IDs, Forge/Biohub inference clients, or ESMFold2 folding workflows.
@k-dense-aiView SkillSkill
Data
etetoolkit
Analyze, manipulate, compare, annotate, and visualize phylogenetic or other hierarchical trees with ETE 4. Use for Newick/Nexus tree I/O, topology edits and…
@k-dense-aiView SkillSkill
Skill
Data
experimental-design
Design experiments and studies BEFORE data is collected — choosing a design, randomizing, blocking, and laying out treatment combinations so results are…
@k-dense-aiView SkillSkill
Data
exploratory-data-analy…
Perform bounded, local exploratory analysis of explicitly supported scientific files. Use for redacted CSV/TSV/JSON profiles; optional NumPy, HDF5,…
@k-dense-aiView SkillSkill
Data
flowio
Read, inspect, and write Flow Cytometry Standard (FCS) 2.0, 3.0, and 3.1 files with FlowIO. Use for low-level FCS metadata and channel inspection, NumPy event…
@k-dense-aiView SkillSkill
Data
fluidsim
Plan, configure, inspect, restart, and analyze bounded FluidSim computational-fluid-dynamics simulations with explicit numerical-validity and HPC safety…
@k-dense-aiView SkillSkill
Skill
Data
geniml
Use Geniml for audited local genomic-interval workflows: validate BED and universe contracts, plan Region2Vec or scEmbed runs, inspect model/tokenizer…
@k-dense-aiView SkillSkill
Data
genomic-coordinates
Convert genomic intervals between coordinate conventions, normalise and compare variant representations, and detect assembly or contig-naming mismatches before…
@k-dense-aiView SkillSkill
Data
genomic-intelligence
Optional gi_ bearer key for the REST /v1 API and a higher MCP quota. The hosted MCP demo runs keyless; request a key at contact@genomicintelligence.ai.
@k-dense-aiView SkillSkill
Data
geomaster
Comprehensive geospatial science skill covering remote sensing, GIS, spatial analysis, machine learning for earth observation, and 30+ scientific domains.…
@k-dense-aiView SkillSkill
Data
geopandas
Guidance and local audit tools for Python workflows that directly use GeoPandas GeoSeries, GeoDataFrame, spatial operations, or vector-data I/O.
@k-dense-aiView SkillSkill
Data
get-available-resource…
Detect host inventory and effective CPU, memory, disk, scheduler, container, and accelerator limits when a user asks for resource-aware planning or before a…
@k-dense-aiView SkillSkill
Data
gget
Fast CLI/Python queries to 20+ bioinformatics databases. Use for quick lookups: gene info, BLAST/BLAT, viral sequence downloads, AlphaFold structures,…
@k-dense-aiView SkillSkill
Data
ginkgo-cloud-lab
Submit and manage protocols on Ginkgo Bioworks Cloud Lab (cloud.ginkgo.bio), a web-based interface for autonomous lab execution on Reconfigurable Automation…
@k-dense-aiView SkillSkill
Data
glycoengineering
Analyze and engineer protein glycosylation. Scan sequences for N-glycosylation sequons (N-X-S/T), predict O-glycosylation hotspots, and access curated…
@k-dense-aiView SkillSkill
Data
gtars
Use Gtars for local genomic interval models and set algebra, overlaps and counts, consensus and coverage, tokenization, fragment processing, and refget/BEDbase…
@k-dense-aiView SkillSkill
Data
histolab
Lightweight WSI tile extraction and preprocessing. Use for basic slide processing, tissue detection, tile extraction, and stain normalization for H&E images.…
@k-dense-aiView SkillSkill
Data
hugging-science
Use when the user is doing AI/ML work in a scientific domain such as biology, chemistry, physics, astronomy, climate, genomics, materials, medicine, ecology,…
@k-dense-aiView SkillSkill
Data
hypogenic
Plans and audits use of ChicagoHAI HypoGeniC/HypoRefine for LLM-assisted hypothesis generation from labeled text datasets. Use for the `hypogenic` package, its…
@k-dense-aiView SkillSkill
Data
hypothesis-generation
Formulate evidence-bounded scientific questions, candidate hypotheses, rival explanations, causal or associational claims, discriminating predictions,…
@k-dense-aiView SkillSkill
Data
imaging-data-commons
Query and download public cancer imaging data from NCI Imaging Data Commons using idc-index. Use for accessing large-scale radiology (CT, MR, PET) and…
@k-dense-aiView SkillSkill
Skill
Data
iso-standards-readines…
Prepares and structurally reviews readiness evidence for ISO management-system and laboratory-competence standards - ISO 13485 medical device QMS, ISO 14971…
@k-dense-aiView SkillSkill
Data
labarchive-integration
Securely integrate with the official LabArchives ELN REST-like API and Inventory API v1. Use for regional endpoint selection, signed-request construction, user…
@k-dense-aiView SkillSkill
Data
lamindb
Use when working with LaminDB, the open-source lineage-native lakehouse for biological datasets and models. Covers setup, artifact registration, query/search,…
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