Topic: gemini-cli
5,463 skills in this topic.
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cobrapy
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
x-cmd/skill 19
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uniprot-database
Direct 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.
x-cmd/skill 19
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clinvar-database
Query NCBI ClinVar for variant clinical significance. Search by gene/position, interpret pathogenicity classifications, access via E-utilities API or FTP, annotate VCFs, for genomic medicine.
x-cmd/skill 19
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rg
Modern, high-speed line-oriented search tool (ripgrep) with an interactive FZF interface. Core Scenario: When the user needs to perform recursive text searches in large codebases or directories.
x-cmd/skill 19
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id
Enhanced user identity information with colorful and structured output. Core Scenario: When the user needs to check UID, GID, and group memberships in a highly readable format.
x-cmd/skill 19
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clinpgx-database
Access ClinPGx pharmacogenomics data (successor to PharmGKB). Query gene-drug interactions, CPIC guidelines, allele functions, for precision medicine and genotype-guided dosing decisions.
x-cmd/skill 19
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clinicaltrials-database
Query ClinicalTrials.gov via API v2. Search trials by condition, drug, location, status, or phase. Retrieve trial details by NCT ID, export data, for clinical research and patient matching.
x-cmd/skill 19
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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
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scientific-critical-thinking
Evaluate scientific claims and evidence quality. Use for assessing experimental design validity, identifying biases and confounders, applying evidence grading frameworks (GRADE, Cochrane Risk of Bias), or teaching critical analysis. Best for understanding evidence quality, identifying flaws. For formal peer review writing use peer-review.
x-cmd/skill 19
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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
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hypothesis-generation
Structured hypothesis formulation from observations. Use when you have experimental observations or data and need to formulate testable hypotheses with predictions, propose mechanisms, and design experiments to test them. Follows scientific method framework. For open-ended ideation use scientific-brainstorming; for automated LLM-driven hypothesis testing on datasets use hypogenic.
x-cmd/skill 19
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skill-creator
Create new skills, modify and improve existing skills, and measure skill performance. Use when users want to create a skill from scratch, update or optimize an existing skill, run evals to test a skill, benchmark skill performance with variance analysis, or optimize a skill's description for better triggering accuracy.
x-cmd/skill 19
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scientific-brainstorming
Creative research ideation and exploration. Use for open-ended brainstorming sessions, exploring interdisciplinary connections, challenging assumptions, or identifying research gaps. Best for early-stage research planning when you do not have specific observations yet. For formulating testable hypotheses from data use hypothesis-generation.
x-cmd/skill 19
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npx
Enhanced interface for npx, used to execute Node.js packages without local installation. Core Scenario: When the user needs to run a one-off Node.js tool or test a package.
x-cmd/skill 19
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opentargets-database
Query Open Targets Platform for target-disease associations, drug target discovery, tractability/safety data, genetics/omics evidence, known drugs, for therapeutic target identification.
x-cmd/skill 19
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hostname
Manage the system's hostname, including viewing current name and setting new names. Core Scenario: When the user needs to identify the device name or change the system hostname.
x-cmd/skill 19
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x-is
Value validation and environment detection tool for Shell scripts. Validates input types (integers, floats, IPs), compares file ages, detects runtime environments (TTY, WSL, Termux, Cygwin). Supports batch checking with exit code 0 success / 1 failure. Trigger when user needs to validate input types, detect terminal environment, check file freshness, verify variable states, or perform environment suitability checks (suitable_pkg/suitable_advise). Keywords: validate, check, verify, is, integer, float, positive, negative, range, IP address, file age, interactive, WSL, Termux, environment detection, unset variable, batch check.
x-cmd/skill 19
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scholar-evaluation
Systematically evaluate scholarly work using the ScholarEval framework, providing structured assessment across research quality dimensions including problem formulation, methodology, analysis, and writing with quantitative scoring and actionable feedback.
x-cmd/skill 19
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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
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theme-factory
Toolkit for styling artifacts with a theme. These artifacts can be slides, docs, reportings, HTML landing pages, etc. There are 10 pre-set themes with colors/fonts that you can apply to any artifact that has been creating, or can generate a new theme on-the-fly.
x-cmd/skill 19
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doc-coauthoring
Guide users through a structured workflow for co-authoring documentation. Use when user wants to write documentation, proposals, technical specs, decision docs, or similar structured content. This workflow helps users efficiently transfer context, refine content through iteration, and verify the doc works for readers. Trigger when user mentions writing docs, creating proposals, drafting specs, or similar documentation tasks.
x-cmd/skill 19
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torchdrug
PyTorch-native graph neural networks for molecules and proteins. Use when building custom GNN architectures for drug discovery, protein modeling, or knowledge graph reasoning. Best for custom model development, protein property prediction, retrosynthesis. For pre-trained models and diverse featurizers use deepchem; for benchmark datasets use pytdc.
x-cmd/skill 19
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slack-gif-creator
Knowledge and utilities for creating animated GIFs optimized for Slack. Provides constraints, validation tools, and animation concepts. Use when users request animated GIFs for Slack like "make me a GIF of X doing Y for Slack."
x-cmd/skill 19
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paper-2-web
This skill should be used when converting academic papers into promotional and presentation formats including interactive websites (Paper2Web), presentation videos (Paper2Video), and conference posters (Paper2Poster). Use this skill for tasks involving paper dissemination, conference preparation, creating explorable academic homepages, generating video abstracts, or producing print-ready posters from LaTeX or PDF sources.
x-cmd/skill 19