Coding & Dev Tools Agent Skills
Coding agent skills teach AI agents repeatable engineering workflows: reviewing pull requests, writing tests, refactoring safely, and enforcing house style. Install one SKILL.md and your agent applies the same checklist every time, whether you use Claude Code, Cursor, Codex, or another agent.
Coding & Dev Tools
9,772 skills
k-dense-ai gget
Query 20+ bioinformatics databases from the command line or Python for gene information, sequences, protein structures, enrichment analysis, and more.
30.2k · bundle
k-dense-ai gtars
High-performance toolkit for genomic interval analysis in Rust with Python bindings. Use when working with genomic regions, BED files, coverage tracks, overlap detection, tokenization for ML models, or fragment analysis in computational genomics and machine learning applications.
30.2k · bundle
k-dense-ai pymoo
Solve single and multi-objective optimization problems using NSGA-II/III, MOEA/D, and other evolutionary algorithms with customizable operators, constraint handling, and benchmark problems.
30.2k · bundle
k-dense-ai pysam
Read, write, and manipulate genomic datasets including SAM/BAM/CRAM alignments, VCF/BCF variants, and FASTA/FASTQ sequences using a Pythonic interface to htslib.
30.2k · bundle
k-dense-ai rdkit
Perform cheminformatics tasks including molecular I/O, descriptor calculation, fingerprinting, substructure search, and similarity analysis using the RDKit library.
30.2k · bundle
k-dense-ai simpy
Build discrete-event simulations of systems with processes, queues, resources, and time-based events using SimPy in Python.
30.2k · bundle
k-dense-ai sympy
Perform exact symbolic mathematics in Python — algebra, calculus, equation solving, symbolic linear algebra, and code generation via lambdify or LaTeX.
30.2k · bundle
k-dense-ai depmap
Query the Cancer Dependency Map (DepMap) for cancer cell line gene dependency scores, drug sensitivity data, and gene effect profiles to identify cancer-specific vulnerabilities, synthetic lethal interactions, and validate oncology drug targets.
30.2k · bundle
k-dense-ai matlab
Perform numerical computing, matrix operations, data analysis, and scientific visualization using MATLAB or GNU Octave.
30.2k · bundle
k-dense-ai qiskit
Build and execute quantum circuits on IBM Quantum hardware, simulators, and third-party providers using the Qiskit framework.
30.2k · bundle
k-dense-ai scanpy
Run standard single-cell RNA-seq analysis pipelines: QC, normalization, dimensionality reduction, clustering, differential expression, and visualization using Scanpy.
30.2k · bundle
k-dense-ai anndata
Create, read, manipulate, and store annotated data matrices using the AnnData Python package, designed for single-cell genomics and general-purpose annotated data workflows.
30.2k · bundle
k-dense-ai astropy
Perform astronomical data analysis with Astropy: coordinate transformations, unit conversions, FITS I/O, cosmological calculations, time handling, table operations, and WCS transformations.
30.2k · bundle
k-dense-ai cobrapy
Perform constraint-based metabolic modeling with COBRApy: run FBA, FVA, gene knockouts, flux sampling, and manage SBML models for systems biology and metabolic engineering.
30.2k · bundle
k-dense-ai matchms
Process and analyze mass spectrometry data: import spectra from MGF, mzML, MSP, and JSON formats; apply 40+ filters for metadata harmonization and peak cleaning; compute spectral similarities (cosine, modified cosine) for compound identification; build reproducible processing pipelines.
30.2k · bundle
k-dense-ai medchem
Apply medicinal chemistry filters for compound triage: drug-likeness rules (Lipinski, Veber, CNS), structural alert catalogs (PAINS, NIBR, ChEMBL), complexity metrics, and a custom query language for library filtering.
30.2k · bundle
k-dense-ai molfeat
Convert chemical structures (SMILES or RDKit molecules) into numerical representations for machine learning using 100+ featurizers, including ECFP, MACCS, descriptors, and pretrained models like ChemBERTa.
30.2k · bundle
k-dense-ai primekg
Query the Precision Medicine Knowledge Graph (PrimeKG) for multiscale biological data including genes, drugs, diseases, phenotypes, and more.
30.2k · bundle
k-dense-ai pydicom
Read, write, and modify DICOM medical imaging files, including pixel data extraction, metadata manipulation, anonymization, and format conversion.
30.2k · bundle
k-dense-ai arboreto
Infer gene regulatory networks from gene expression data using scalable algorithms (GRNBoost2, GENIE3) with support for distributed computation.
30.2k · bundle
k-dense-ai deepchem
Predict molecular properties, train graph neural networks, and run drug discovery workflows using DeepChem's featurizers, models, and MoleculeNet benchmarks.
30.2k · bundle
k-dense-ai diffdock
Predict 3D binding poses of small molecule ligands to protein targets using diffusion-based molecular docking, supporting single complexes, batch processing, and virtual screening.
30.2k · bundle
k-dense-ai fluidsim
Run computational fluid dynamics simulations using Python, including Navier-Stokes equations, shallow water, and stratified flows with pseudospectral methods and HPC support.
30.2k · bundle
k-dense-ai pi-agent
Install, configure, and extend Pi, a terminal coding harness, with support for custom providers, models, extensions, skills, packages, themes, SDK integration, RPC mode, JSON event streams, and ecosystem packages for subagent delegation, MCP servers, interactive forms, and web access.
30.2k · bundle
k-dense-ai pydeseq2
Perform differential gene expression analysis for bulk RNA-seq data using PyDESeq2, supporting formulaic designs, Wald tests, FDR correction, LFC shrinkage, and result visualization.
30.2k · bundle
k-dense-ai pyopenms
Analyze proteomics and metabolomics mass spectrometry data with PyOpenMS: read/write MS file formats, process spectra, detect and quantify features, identify peptides and proteins, and run end-to-end LC-MS/MS pipelines using ready-to-run scripts.
30.2k · bundle
k-dense-ai deeptools
Process and analyze high-throughput sequencing data with deepTools for quality control, normalization, comparison, and publication-quality visualizations of ChIP-seq, RNA-seq, and ATAC-seq experiments.
30.2k · bundle
k-dense-ai tiledbvcf
Store, query, and export genomic variant data (VCF/BCF) using TileDB's sparse array technology for scalable population genomics workflows.
30.2k
k-dense-ai scikit-bio
Analyze biological sequences, alignments, phylogenetic trees, and diversity metrics (alpha/beta, UniFrac) with ordination (PCoA) and PERMANOVA for microbiome and community ecology data.
30.2k · bundle
k-dense-ai umap-learn
Perform nonlinear dimensionality reduction, 2D/3D embeddings, clustering preprocessing, supervised or semi-supervised UMAP, DensMAP, AlignedUMAP, and Parametric UMAP workflows using the umap-learn library.
30.2k · bundle
k-dense-ai peer-review
Evaluate scientific manuscripts and grant proposals with structured, checklist-based peer review covering methodology, statistics, reproducibility, ethics, and reporting standards.
30.2k · bundle
k-dense-ai phylogenetics
Build and analyze phylogenetic trees using MAFFT, IQ-TREE 2, and FastTree, with visualization via ETE3 or FigTree for evolutionary analysis, microbial genomics, viral phylodynamics, and molecular clock studies.
30.2k · bundle
k-dense-ai dhdna-profiler
Analyze any text to extract a cognitive fingerprint across 12 dimensions, revealing reasoning patterns, decision styles, and thinking signatures.
30.2k · bundle
k-dense-ai generate-image
Generate and edit high-quality images using OpenRouter's AI models including FLUX.2 Pro and Gemini 3.1 Flash Image Preview.
30.2k · bundle
k-dense-ai what-if-oracle
Run structured What-If scenario analysis with 4-6 branch possibility exploration (best, likely, worst, wild card, contrarian, second-order). Use for speculative questions about uncertain futures, strategic forks, contingency planning, or stress-testing decisions.
30.2k · bundle
k-dense-ai database-lookup
Query documented public database APIs with explicit endpoints, filters, pagination, and provenance for reproducible retrieval of scientific, regulatory, or financial facts.
30.2k · bundle
Frequently asked questions
What are Coding & Dev Tools agent skills?
Coding agent skills teach AI agents repeatable engineering workflows: reviewing pull requests, writing tests, refactoring safely, and enforcing house style. Install one SKILL.md and your agent applies the same checklist every time, whether you use Claude Code, Cursor, Codex, or another agent.
Which Coding & Dev Tools skills are most installed?
Popular Coding & Dev Tools skills on SkillMD right now include primekg, fluidsim, pydeseq2. Rankings shift as installs change; sort this page by "Most downloaded" for the live list.
Do Coding & Dev Tools skills work with Claude Code and Cursor?
Yes. Every skill here ships as a SKILL.md file, an open format that works in Claude Code, Claude.ai, Cursor, Codex, Windsurf, and 60+ other agents. Install one with npx skillmds add <owner>/<name>, or copy the file into your agent's skills directory.