Documentation

Docs, README files, API references, tutorials, specs, and changelogs

skills in category: 13,976
pages available: 583

Security grades appear on each card once the skill has been scanned. Newly imported skills may briefly show without a grade until the backfill job runs.

Open in full browser

Browse documentation skills

Showing 13,753–13,776 of 13,976 skills

Spec CritiqueASelf-critique specification documents using extended thinking. Use when a spec is complete and needs validation before implementation.documentationgobashVotes: 0GitHub stars: 40
Uniprot DatabaseADirect REST API access to UniProt. Protein searches, FASTA retrieval, ID mapping, Swiss-Prot/TrEMBL. For Python workflows with multiple databases, prefer bioservices (unified interface to 40+ services). Use this for direct HTTP/REST work or UniProt-specific control.documentationpythongoVotes: 0GitHub stars: 40
Scientific SlidesABuild slide decks and presentations for research talks. Use this for making PowerPoint slides, conference presentations, seminar talks, research presentations, thesis defense slides, or any scientific talk. Provides slide structure, design templates, timing guidance, and visual validation. Works with PowerPoint and LaTeX Beamer.documentationpythongoVotes: 0GitHub stars: 40
ScanpyAStandard single-cell RNA-seq analysis pipeline. Use for QC, normalization, dimensionality reduction (PCA/UMAP/t-SNE), clustering, differential expression, and visualization. Best for exploratory scRNA-seq analysis with established workflows. For deep learning models use scvi-tools; for data format questions use anndata.documentationpythongoVotes: 0GitHub stars: 40
RowanBCloud-based quantum chemistry platform with Python API. Preferred for computational chemistry workflows including pKa prediction, geometry optimization, conformer searching, molecular property calculations, protein-ligand docking (AutoDock Vina), and AI protein cofolding (Chai-1, Boltz-1/2). Use when tasks involve quantum chemistry calculations, molecular property prediction, DFT or semiempirical methods, neural network potentials (AIMNet2), protein-ligand binding predictions, or automated co...documentationpythongoVotes: 0GitHub stars: 40
PysamAGenomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.documentationpythongoVotes: 0GitHub stars: 40
Local BlastARun local BLAST searches using BLAST+ command-line tools. Use when running fast unlimited searches, building custom databases, performing large-scale analysis, or when NCBI servers are slow or unavailable.documentationpythongoVotes: 0GitHub stars: 1,198
Mermaid Diagram SpecialistA**Purpose**: Expert in creating comprehensive Mermaid diagrams for documentation, architecture visualization, and process mappingdocumentationgosqlVotes: 0GitHub stars: 30,495
Multipanel FiguresACombine multiple plots into publication-ready multi-panel figures using patchwork, cowplot, or matplotlib GridSpec with shared legends and panel labels. Use when combining multiple plots into publication figures.documentationpythonexpressVotes: 0GitHub stars: 1,198
Ggplot2 FundamentalsACreate publication-quality scientific figures with ggplot2 including scatter plots, boxplots, heatmaps, and multi-panel layouts. Use when creating static figures for papers, presentations, or reports in R.documentationgoexpressVotes: 0GitHub stars: 1,198
Dbsnp QueriesAQuery dbSNP for rsID lookups, variant annotations, and cross-references to other databases. Use when mapping between rsIDs and genomic coordinates or retrieving basic variant information.documentationpythongoVotes: 0GitHub stars: 1,198
Splicing QcAAssesses RNA-seq data quality for splicing analysis including junction saturation curves, splice site strength scoring, and junction coverage metrics using RSeQC. Use when evaluating data suitability for splicing analysis or troubleshooting low event detection.documentationpythongoVotes: 0GitHub stars: 1,198
Msa StatisticsACalculate alignment statistics including sequence identity, conservation scores, substitution matrices, and similarity metrics. Use when comparing alignment quality, measuring sequence divergence, and analyzing evolutionary patterns.documentationpythonVotes: 0GitHub stars: 1,198
Msa ParsingAParse and analyze multiple sequence alignments using Biopython. Extract sequences, identify conserved regions, analyze gaps, work with annotations, and manipulate alignment data for downstream analysis. Use when parsing or manipulating multiple sequence alignments.documentationpythonVotes: 0GitHub stars: 1,198
Alignment IoARead, write, and convert multiple sequence alignment files using Biopython Bio.AlignIO. Supports Clustal, PHYLIP, Stockholm, FASTA, Nexus, and other alignment formats for phylogenetics and conservation analysis. Use when reading, writing, or converting alignment file formats.documentationpythonVotes: 0GitHub stars: 1,198
Mermaid DiagramsAComprehensive guide for creating software diagrams using Mermaid syntax. Use when users need to create, visualize, or document software through diagrams including class diagrams (domain modeling, object-oriented design), sequence diagrams (application flows, API interactions, code execution), flowcharts (processes, algorithms, user journeys), entity relationship diagrams (database schemas), C4 architecture diagrams (system context, containers, components), state diagrams, git graphs, pie char...documentationgonodeVotes: 0GitHub stars: 30,495
Marp SlideACreate professional Marp presentation slides with 7 beautiful themes (default, minimal, colorful, dark, gradient, tech, business). Use when users request slide creation, presentations, or Marp documents. Supports custom themes, image layouts, and "make it look good" requests with automatic quality improvements.documentationgogitVotes: 0GitHub stars: 30,495
User Guide CreationACreate comprehensive user guides, tutorials, how-to documentation, and step-by-step instructions with screenshots and examples. Use when writing user documentation, tutorials, or getting started guides.documentationgobashVotes: 0GitHub stars: 327
Troubleshooting GuideACreate comprehensive troubleshooting guides, FAQ documents, known issues lists, and debug guides. Use when documenting common problems, error messages, or debugging procedures.documentationjavascriptgoVotes: 0GitHub stars: 327
Technical SpecificationACreate detailed technical specifications, requirements documents, design documents, and system architecture specs. Use when writing technical specs, requirements docs, or design documents.documentationjavascripttypescriptVotes: 0GitHub stars: 327
Semantic VersioningAImplement semantic versioning (SemVer) with automated release management. Use conventional commits, semantic-release, and version bumping strategies.documentationjavascriptjavaVotes: 0GitHub stars: 327
Markdown DocumentationBMaster markdown formatting, GitHub Flavored Markdown, README files, and documentation formatting. Use when writing markdown docs, READMEs, or formatting documentation.documentationjavascripttypescriptVotes: 0GitHub stars: 327
Changelog MaintenanceAMaintain comprehensive changelogs and release notes following Keep a Changelog format. Use when documenting version history, release notes, or tracking changes across versions.documentationjavascriptgoVotes: 0GitHub stars: 327
Api Changelog VersioningBDocument API changes, breaking changes, migration guides, and version history for APIs. Use when documenting API versioning, breaking changes, or creating API migration guides.documentationjavascripttypescriptVotes: 0GitHub stars: 327