Topic: codex
8,457 skills in this topic.
-
chembl-database
Query ChEMBL bioactive molecules and drug discovery data. Search compounds by structure/properties, retrieve bioactivity data (IC50, Ki), find inhibitors, perform SAR studies, for medicinal chemistry.
x-cmd/skill 19
-
scanpy
Standard 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.
x-cmd/skill 19
-
gwas-database
Query NHGRI-EBI GWAS Catalog for SNP-trait associations. Search variants by rs ID, disease/trait, gene, retrieve p-values and summary statistics, for genetic epidemiology and polygenic risk scores.
x-cmd/skill 19
-
deeptools
NGS analysis toolkit. BAM to bigWig conversion, QC (correlation, PCA, fingerprints), heatmaps/profiles (TSS, peaks), for ChIP-seq, RNA-seq, ATAC-seq visualization.
x-cmd/skill 19
-
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.
x-cmd/skill 19
-
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 format skill—for analysis workflows use scanpy; for probabilistic models use scvi-tools; for population-scale queries use cellxgene-census.
x-cmd/skill 19
-
gemini
Integrate Google Gemini AI for chat, text analysis, and multimodal tasks like image understanding. Core Scenario: When the user wants to use Gemini models for advanced chat, translation with file context, or analyzing images via CLI.
x-cmd/skill 19
-
mosh
Enhanced interface for Mosh (Mobile Shell), a robust SSH replacement for unstable networks. Core Scenario: When the user needs a persistent, roaming remote terminal connection over UDP.
x-cmd/skill 19
-
rowan
Cloud-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 computational chemistry pipelines. Provides cloud compute resources with no local setup required.
x-cmd/skill 19
-
stat
Display detailed file or file system status with support for structured data exports (JSON, CSV). Core Scenario: When the user needs precise metadata about files or file systems for diagnostics or automation.
x-cmd/skill 19
-
canvas-design
Create beautiful visual art in .png and .pdf documents using design philosophy. You should use this skill when the user asks to create a poster, piece of art, design, or other static piece. Create original visual designs, never copying existing artists' work to avoid copyright violations.
x-cmd/skill 19
-
tee
Redirect output to files and stdout while preserving the original command's exit code. Core Scenario: When the user needs to log command output to a file without losing the ability to check the success of the command.
x-cmd/skill 19
-
gh
Enhanced GitHub CLI for managing repositories, issues, PRs, actions, and GitHub Models. Core Scenario: When the user needs to automate GitHub workflows, manage secrets, or use GitHub's AI models via CLI.
x-cmd/skill 19
-
gitconfig
Manage Git configurations using YAML files for structured and portable setup. Core Scenario: When the user needs to apply complex Git configurations or migrate settings via YAML.
x-cmd/skill 19
-
writer
AI text processing module for simplified translation, summarization, and refinement. Core Scenario: When the user needs to translate, polish, or summarize text using pre-configured AI agents.
x-cmd/skill 19
-
yq
Portable command-line YAML, JSON, and XML processor with an interactive REPL for exploring data. Core Scenario: When the user needs to query, extract, or interactively browse YAML configurations or structured data.
x-cmd/skill 19
-
telegram
Send messages and files to Telegram groups or channels using bot tokens. Core Scenario: When the user needs to automate alerts or share files with Telegram chats via bot.
x-cmd/skill 19
-
x-zuz
Unified compression and decompression tool. Core Scenario: When AI needs to handle various archive formats (zip, tar, gz, 7z, rar, zst, xz, bz2) in the terminal. x-cmd provides concise aliases and zero-dependency installation.
x-cmd/skill 19
-
latex-posters
Create professional research posters in LaTeX using beamerposter, tikzposter, or baposter. Support for conference presentations, academic posters, and scientific communication. Includes layout design, color schemes, multi-column formats, figure integration, and poster-specific best practices for visual communication.
x-cmd/skill 19
-
brenda-database
Access BRENDA enzyme database via SOAP API. Retrieve kinetic parameters (Km, kcat), reaction equations, organism data, and substrate-specific enzyme information for biochemical research and metabolic pathway analysis.
x-cmd/skill 19
-
internal-comms
A set of resources to help me write all kinds of internal communications, using the formats that my company likes to use. Claude should use this skill whenever asked to write some sort of internal communications (status reports, leadership updates, 3P updates, company newsletters, FAQs, incident reports, project updates, etc.).
x-cmd/skill 19
-
uptime
Display system uptime and load averages in structured YAML format. Core Scenario: When the user needs to check system busy state (load) or total runtime in a script-friendly format.
x-cmd/skill 19
-
uninstall
Unified software uninstaller for various package managers (brew, scoop, apt, etc.). Core Scenario: When the user needs to uninstall software regardless of the package manager used.
x-cmd/skill 19
-
x-knowledge
This skill provides access to various knowledge search tools through x-cmd CLI, including Hacker News, Wikipedia, DuckDuckGo search, RFC documents, Project Gutenberg books, and Stack Exchange. This skill should be used when users need to search for technical information, browse online knowledge bases, or access documentation from command line interfaces.
x-cmd/skill 19