Browse Skills — Page 63

cli-cast

PaulRBerg/agent-skills

Separate read, preparation, simulation, signing, and broadcast so no state-changing action is hidden inside command construction.

cli-channel-debugging

microsoft/aspire

Emulates any Aspire CLI build identity (channel, version, commit, package source) from a locally built CLI using ASPIRE_CLI_* environment variables and the install sidecar, so a reported bug can be reproduced and fixed locally without going through the install/PR loop. Use this when asked to reproduce channel/version/quality-specific CLI behavior, simulate a daily/staging/stable/PR build locally, or decide which override knobs to set for a given scenario.

cli-command

ComposioHQ/composio

Design, implement, or review Composio CLI commands under ts/packages/cli using Effect, effect/cli, services, output conventions, configuration and environment variables, and local vendor references. Use for CLI command UX, command wiring, service changes, or CLI source edits. Do not use for CLI E2E-only work; use cli-e2e there.

cli-creator

openai/skills

Build a composable CLI for Codex from API docs, an OpenAPI spec, existing curl examples, an SDK, a web app, an admin tool, or a local script. Use when the user wants Codex to create a command-line tool that can run from any repo, expose composable read/write commands, return stable JSON, manage auth, and pair with a companion skill.

cli-demo-generator

daymade/claude-code-skills

Generates professional animated CLI demos as GIFs using VHS terminal recordings. Handles tape file creation, self-bootstrapping demos with hidden setup, output noise filtering, post-processing speed-up, and frame-level verification. Use when users want to create terminal demos, record CLI workflows as GIFs, generate animated documentation, build demo tapes for README files, or need to showcase any command-line tool visually. Also triggers on "record terminal", "VHS tape", "demo GIF", "animate my CLI", or any request to visually demonstrate shell commands.

cli-design

joelhooks/joelclaw

"Design and build agent-first CLIs with HATEOAS JSON responses, context-protecting output, and self-documenting command trees. Use when creating new CLI tools, adding commands to existing CLIs (joelclaw, slog), or reviewing CLI design for agent-friendliness. Triggers on 'build a CLI', 'add a command', 'CLI design', 'agent-friendly output', or any task involving command-line tool creation."

cli-developer

Jeffallan/claude-skills

Use when building CLI tools, implementing argument parsing, or adding interactive prompts. Invoke for parsing flags and subcommands, displaying progress bars and spinners, generating bash/zsh/fish completion scripts, CLI design, shell completions, and cross-platform terminal applications using commander, click, typer, or cobra.

cli-discover

vellum-ai/vellum-assistant

Discover which CLI tools are installed, their versions, and authentication status

cli-e2e

ComposioHQ/composio

Write, modify, or debug Docker-based Composio CLI end-to-end tests under ts/e2e-tests/cli, including binary invocation, fixture isolation, output assertions, and package manifests. Use for CLI E2E test suites only; use cli-command for CLI source implementation.

cli-e2e-testcase-writer

larksuite/cli

Use when adding or updating Go CLI E2E coverage for one `tests/cli_e2e/{domain}` domain of the compiled `lark-cli`, especially when the work requires live `--help` or `schema` exploration, scenario-based `clie2e.RunCmd` workflows, and per-domain `coverage.md` maintenance.

cli-e2e-testing

microsoft/aspire

Use when creating, modifying, debugging, or reviewing Aspire CLI end-to-end tests that use Hex1b terminal automation under tests/Aspire.Cli.EndToEnd.Tests/.

cli-gh

PaulRBerg/agent-skills

Route GitHub CLI work through current `gh` help and load only the reference for the active task.

cli-just

PaulRBerg/agent-skills

Create readable task automation that matches the repository's installed Just version and existing justfile conventions.

cli-local-build

kurtosis-tech/kurtosis

Build and test the Kurtosis CLI from source. Compile the CLI binary locally, run it against Docker or Kubernetes engines, and iterate on CLI changes without creating a release. Use when developing or debugging CLI commands.

cli-logging-ux

microsoft/apm

>

cli-mastery

github/awesome-copilot

Interactive training for the GitHub Copilot CLI. Guided lessons, quizzes, scenario challenges, and a full reference covering slash commands, shortcuts, modes, agents, skills, MCP, and configuration. Say "cliexpert" to start.

cli-release

ComposioHQ/composio

Release and recover first-party Composio CLI binaries through Build CLI Binaries, including automatic beta builds, promote-stable dispatches, beta-tag selection, asset and installation verification, and failed release recovery. Use when a contributor asks to build a CLI beta, publish or promote a stable CLI version, choose a release candidate, monitor a CLI release, or diagnose a failed CLI release. Do not use for TypeScript SDK Changesets releases or CLI source implementation.

cli-tools

megalithic/dotfiles

Modern CLI tool usage (fd, rg) for fast file and content searching. Critical for Nix store searches and large codebases. Use when searching files or content, especially in /nix/store.

click-around

stella/stella

Autonomous browser-based QA and UX smoke test. Starts the dev server, takes control of Chrome, walks through user stories for a feature area, monitors the console, and produces a structured report on what works, what breaks, and what feels wrong.

click-path-audit

affaan-m/ECC

Trace every user-facing button/touchpoint through its full state change sequence to find bugs where functions individually work but cancel each other out, produce wrong final state, or leave the UI in an inconsistent state. Use when: systematic debugging found no bugs but users report broken buttons, or after any major refactor touching shared state stores.

clickhouse

TerminalSkills/skills

>

clickhouse-architect

terrylica/cc-skills

ClickHouse schema design and optimization. TRIGGERS - ClickHouse schema, compression codecs, MergeTree, ORDER BY tuning, partition key.

clickhouse-cloud-management

terrylica/cc-skills

ClickHouse Cloud user and permission management. TRIGGERS - create ClickHouse user, ClickHouse permissions, ClickHouse Cloud credentials.

clickhouse-io

affaan-m/ECC

ClickHouse database patterns, query optimization, analytics, and data engineering best practices for high-performance analytical workloads.

clickhouse-logs-queries

supabase/supabase

>-

clickhouse-pydantic-config

terrylica/cc-skills

Generate DBeaver config from Pydantic ClickHouse models. TRIGGERS - DBeaver config, ClickHouse connection, database client config.

clickhouse-system-queries

FrankChen021/datastoria

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clickmeeting-automation

ComposioHQ/awesome-claude-skills

"Automate Clickmeeting tasks via Rube MCP (Composio). Always search tools first for current schemas."

clickup

vm0-ai/vm0-skills

ClickUp API for tasks and spaces. Use when user mentions "ClickUp", "clickup.com",

clickup-automation

benjaminasterA/antigravity-awesome-skills

Automate ClickUp project management including tasks, spaces, folders, lists, comments, and team operations via Rube MCP (Composio). Always search tools first for current schemas.

clickup-automation-v2

diegosouzapw/awesome-omni-skills

ClickUp Automation via Rube MCP workflow skill. Use this skill when the user needs Automate ClickUp project management including tasks, spaces, folders, lists, comments, and team operations via Rube MCP (Composio). Always search tools first for current schemas and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

client-comms-log

anthropics/claude-for-legal

>

client-compatibility

microsoft/aitour26-BRK445-building-enterprise-ready-ai-agents-with-microsoft-foundry

Platform detection and adaptive spawning for CLI vs VS Code vs other surfaces

client-discovery

aAAaqwq/AGI-Super-Team

Analyze client automation/AI requests into structured scoping with hours, pricing, and priorities

client-health-dashboard

OneWave-AI/claude-skills

Generates a comprehensive client health overview across all accounts. Reads CRM data, support tickets, usage metrics, billing, and engagement logs. Calculates health scores, trend direction, and RAG status per client. Outputs a sorted risk report with recommended actions.

client-intake

anthropics/claude-for-legal

>

client-letter

anthropics/claude-for-legal

>

client-onboarding

indranilbanerjee/digital-marketing-pro

Plan client onboarding. Use when: kickoff agenda, discovery questionnaire, account setup checklist, 30-60-90 day plan.

client-onboarding-proposal

seranking/seo-skills

>

client-proposal

indranilbanerjee/digital-marketing-pro

Draft agency proposals. Use when: pitch deck, scope of work, SLA, capabilities presentation for prospects or clients.

client-proposal-generator

OneWave-AI/claude-skills

Generates full consulting proposals from a brief. Input client name, problem description, and rough scope. Outputs proposal.md with executive summary, problem statement, proposed approach, timeline, team, pricing tiers, and terms. Researches client company for personalization. Multiple pricing models. Professional formatting matching consulting standards.

client-proposal-writing

Significant-Gravitas/skills-catalog

Write a client proposal, quote, scope of work, or engagement letter for a service business. Covers project understanding, scope, timeline, pricing presentation, and terms. Use whenever the user asks for a proposal, quote, project proposal, client proposal, SOW, statement of work, engagement letter, or B2B service engagement document — for web dev, consulting, trades, or any service business.

client-report

indranilbanerjee/digital-marketing-pro

Generate client-facing reports. Use when: white-labeled performance report with KPIs, trends, strategic recommendations.

client-report

anthropics/financial-services

Generate professional client-facing performance reports with portfolio returns, allocation breakdowns, and market commentary. Suitable for quarterly or annual distribution. Triggers on "client report", "performance report", "quarterly report for [client]", "generate reports", or "client statement".

client-review

anthropics/financial-services

Prepare for client review meetings with portfolio performance summary, allocation analysis, talking points, and action items. Pulls together account data into a concise meeting-ready format. Use before quarterly reviews, annual checkups, or ad-hoc client meetings. Triggers on "client review", "meeting prep for [client]", "quarterly review", "prep for [client name]", or "client meeting".

client-scripts

serac-labs/serac

Write ServiceNow client scripts (onLoad/onChange/onSubmit/onCellEdit) using g_form, g_user, GlideAjax, field visibility/mandatory toggles, and validation with debounced server calls.

client-side-routing

BuilderIO/agent-native

>-

client-validation-document

indranilbanerjee/digital-marketing-pro

Produce the Part 5 Client Validation Document — the one true stop where unbiased v1 findings meet the client. Each finding gets ACCEPT/REJECT/EDIT/DEFER decision.

client-workspace

aAAaqwq/AGI-Super-Team

Create client folder structure in Drive, share docs, check permissions before calls

climate-science

Tibsfox/gsd-skill-creator

Climate physics, forcing, feedback, and attribution. Covers the greenhouse effect and radiative forcing, climate sensitivity, fast and slow feedbacks, the paleoclimate record, detection and attribution science, regional climate impacts, and the distinction between weather, climate variability, and forced climate change. Use when reasoning about global warming mechanisms, interpreting temperature or CO2 records, evaluating attribution claims for extreme events, or distinguishing signal from natural variability.

climate-tech-advisor

borghei/Claude-Skills

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cline

TerminalSkills/skills

>-

clinic-research-design

aipoch/medical-research-skills

Generates a structured prompt framework for clinical study protocols. Supports Diagnostic, Efficacy, Etiology, and Prognosis studies. Calculates sample size and provides logic guides for LLMs.

clinic-sample-size

aipoch/medical-research-skills

Unified tool for calculating sample sizes for Diagnostic, Efficacy, Etiology, and Prognosis clinical studies. Supports various statistical methods (Sensitivity/Specificity, Log-rank, Chi-square, EPV, etc.).

clinical_pharmacology_report

InternScience/scp

Clinical Pharmacology Report - Generate clinical pharmacology report: PK, PD, mechanism, drug interactions, and special populations. Use this skill for clinical pharmacology tasks involving get pharmacokinetics by drug name get pharmacodynamics by drug name get mechanism of action by drug name get drug interactions by drug name get geriatric use info by drug name. Combines 5 tools from 1 SCP server(s).

clinical_trial_drug_profile

InternScience/scp

Clinical Trial Drug Profiling - Profile drug for clinical trials: FDA clinical studies, contraindications, pregnancy info, and geriatric use. Use this skill for clinical research tasks involving get clinical studies info by drug name get contraindications by drug name get pregnancy effects info by drug name get geriatric use info by drug name. Combines 4 tools from 1 SCP server(s).

clinical-biostatistics-adaptive-designs

swaruplab/operon

Designs adaptive clinical trials including group-sequential (O'Brien-Fleming, Pocock, Lan-DeMets spending), sample-size re-estimation (blinded Friede-Kieser, unblinded Cui-Hung-Wang, Mehta-Pocock promising zone), seamless Phase 2/3 with treatment-arm selection, population enrichment, and response-adaptive randomisation. Covers FDA 2019 Final Adaptive Designs Guidance, FDA 2022 Master Protocols, and ICH E20 Step 2b/3 draft (June 2025, NOT final). Use when planning interim analyses, sample-size re-estimation, or master/platform-trial designs.

clinical-biostatistics-bayesian-trials

swaruplab/operon

Designs Bayesian clinical trials including Phase I dose-finding (BOIN, CRM, EWOC, mTPI-2), meta-analytic-predictive (MAP) priors with robust mixtures for external data borrowing, EXNEX for basket trials, hierarchical models for safety AE (Berry-Berry), Bayesian platform trials (I-SPY 2, GBM AGILE, REMAP-CAP), and posterior probability stopping rules. Covers FDA Bayesian Devices Guidance (2010), FDA Bayesian Methodology in Drugs Draft (January 2026), BOIN Fit-for-Purpose qualification (December 2021), and Project Optimus dose-optimisation. Use when designing dose-finding studies, platform trials, or sensitivity analyses with informative priors.

clinical-biostatistics-categorical-tests

swaruplab/operon

Tests associations between categorical variables in clinical data using chi-square, Fisher's exact, Boschloo, Cochran-Mantel-Haenszel, and modern McNemar variants with calibrated confidence intervals (Wilson, Newcombe, Miettinen-Nurminen). Use when analyzing categorical outcomes, paired binary endpoints, or testing treatment-outcome independence in confirmatory or exploratory clinical trials.

clinical-biostatistics-cdisc-data

swaruplab/operon

Reads, validates, and prepares CDISC SDTM and ADaM clinical trial data for analysis. Covers SDTM domain joins (DM, AE, EX, VS, LB, DS), ADaM architecture (ADSL, BDS, OCCDS, ADTTE) with traceability, treatment-emergent AE conventions, baseline derivation, SUPPQUAL/NSV handling, Define-XML 2.1, and Pinnacle 21 / CORE validation. Use when working with clinical trial datasets in CDISC SDTM/ADaM format, preparing analysis-ready data, or validating for regulatory submission.

clinical-biostatistics-effect-measures

swaruplab/operon

Computes and interprets treatment effect measures (OR, RR, RD, HR, NNT) with calibrated confidence intervals (Wilson, Newcombe, Miettinen-Nurminen, MOVER, profile likelihood, Bender NNT) and reports marginal vs conditional estimands per FDA 2023 covariate adjustment guidance. Use when reporting treatment effects in confirmatory trials, comparing effect sizes across studies, or constructing forest plots.

clinical-biostatistics-logistic-regression

swaruplab/operon

Performs logistic regression for clinical trial outcomes (binary, ordinal, multinomial) with marginal-vs-conditional estimand reporting per FDA 2023 covariate adjustment guidance, g-computation/standardisation for marginal effects, modified Poisson for RR, Brant test for proportional odds, Firth penalty for separation, and Hauck-Donner detection. Use when modeling binary or ordinal endpoints in confirmatory or exploratory clinical trials.

clinical-biostatistics-missing-data

swaruplab/operon

Implements missing-data sensitivity analyses for confirmatory clinical trials including MMRM under MAR (with Kenward-Roger correction), reference-based multiple imputation (J2R, CR, CIR, LMCF per Carpenter-Roger 2013), Permutt delta-adjustment / tipping-point analysis, pattern-mixture identifying restrictions (CCMV, NCMV, ACMV), and the Cro vs Bartlett variance debate. Use when handling missing primary or secondary endpoint data in regulatory submissions following NRC 2010 and ICH E9(R1).

clinical-biostatistics-multiplicity-graphical

swaruplab/operon

Implements multiplicity control for confirmatory clinical trials using graphical procedures (Bretz-Maurer-Hommel), gatekeeping (parallel, serial, mixed), Hochberg/Hommel/Holm with PRDS, and the closed-testing principle (Marcus-Peritz-Gabriel; Goeman 2021 admissibility). Covers FDA Multiple Endpoints Final Guidance (October 2022), graphical procedures via R gMCP, primary + key-secondary + subgroup hierarchies, and FWER vs FDR distinction. Use when designing the multiplicity strategy for confirmatory trials with multiple primary or key secondary endpoints.

clinical-biostatistics-power-sample-size

swaruplab/operon

Computes sample size and power for clinical trials including continuous, binary, and time-to-event endpoints; superiority, non-inferiority, and equivalence designs; FDA 2016 non-inferiority margin selection with M1/M2 framework; Schoenfeld 1981 and Lakatos 1988 for survival; Schuirmann TOST and 80-125% bioequivalence; minimum clinically important difference (MCID) vs δ distinction. Use when justifying trial size in protocol or SAP per CONSORT 2025 item 7.

clinical-biostatistics-subgroup-analysis

swaruplab/operon

Performs subgroup and heterogeneous treatment effect (HTE) analyses for clinical trials. Covers Mantel-Haenszel pooling, Breslow-Day, interaction tests in regression, RERI for additive interaction, modern data-adaptive HTE methods (STEPP, SIDES, causal forests, X/R-learners), Bayesian shrinkage (Dixon-Simon, MAP, EXNEX), graphical multiplicity (Bretz-Maurer), and credibility frameworks (Sun BMJ, EMA 2019). Use when analyzing treatment effects across patient subgroups for regulatory submissions or precision-medicine claims.

clinical-biostatistics-survival-analysis

swaruplab/operon

Performs time-to-event analysis for clinical trials including Cox proportional hazards regression with PH diagnostics, restricted mean survival time (RMST) under non-PH, competing risks via Fine-Gray vs cause-specific Cox, weighted log-rank and MaxCombo for non-proportional hazards, recurrent events (Andersen-Gill, PWP, WLW), and interval-censored data. Use when analyzing time-to-event endpoints (OS, PFS, DOR, TTR, TTNT) in oncology or other clinical trials.

clinical-biostatistics-trial-reporting

swaruplab/operon

Prepares statistical reports for clinical trials following CONSORT 2025, SPIRIT 2025, ICH E9(R1) estimands, and FDA 2023 covariate adjustment guidance. Covers Table 1 generation, analysis populations (ITT/FAS/PP/Safety), the 5 ICH E9(R1) intercurrent-event strategies, MMRM under MAR (mmrm), reference-based MI (rbmi J2R/CR/CIR), Permutt tipping-point sensitivity, and Rubin's-rules vs frequentist variance debate. Use when preparing regulatory submissions, defining estimands, or implementing missing-data sensitivity analyses.

clinical-case-summary

mohitagw15856/pm-claude-skills

Write a structured clinical case summary or case presentation. Use when asked to write a clinical case summary, case presentation, patient case report, or clinical handover. Produces a structured summary using SBAR or SOAP format. For educational and documentation purposes only — not a substitute for clinical judgement.

clinical-cohort-protocol-designer

aipoch/medical-research-skills

Designs retrospective or prospective clinical cohort study protocols for biomedical and clinical research. Always use this skill when the user needs a cohort-based study plan rather than a general study idea, evidence summary, or mechanistic experiment design. Focus on cohort appropriateness, enrollment logic, baseline time-zero definition, follow-up structure, endpoint definition, variable collection, confounding control, and a coherent primary statistical analysis line. Do not invent data availability, follow-up completeness, outcome ascertainment quality, sample size adequacy, or causal interpretability.

clinical-data-cleaner

aipoch/medical-research-skills

Use when cleaning clinical trial data, preparing data for FDA/EMA submission, standardizing SDTM datasets, handling missing values in clinical studies, detecting outliers in lab results, or converting raw CRF data to CDISC format. Cleans and standardizes clinical trial data for regulatory compliance with audit trails.

clinical-decision-support

K-Dense-AI/scientific-agent-skills

Generate professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings, including patient cohort analyses (biomarker-stratified with outcomes) and treatment recommendation reports (evidence-based guidelines with decision algorithms). Supports GRADE evidence grading, statistical analysis (hazard ratios, survival curves, waterfall plots), biomarker integration, and regulatory compliance. Outputs publication-ready LaTeX/PDF format optimized for drug development, clinical research, and evidence synthesis.

clinical-decision-support-documents

jaechang-hits/SciAgent-Skills

Guidelines for clinical decision support (CDS) documents: biomarker-stratified cohort analyses and GRADE-graded treatment reports. Covers structure, executive summaries, evidence grading (1A–2C), stats (HR, CI, survival), and biomarker integration. Use for pharma research docs, clinical guidelines, regulatory submissions.

clinical-diagnostic-reasoning

swaruplab/operon

Identify and counteract cognitive biases in medical decision-making through systematic error analysis and contextual algorithm application. For diagnostic reasoning, treatment decisions, and

clinical-foundations

Tibsfox/gsd-skill-creator

Foundations of clinical psychology and psychopathology. Covers anxiety disorders (generalized anxiety, panic, phobias, OCD, PTSD), depressive disorders (major depression, persistent depressive disorder, bipolar), personality theories (psychodynamic, trait/Big Five, humanistic, social-cognitive), therapeutic approaches (CBT, psychodynamic, humanistic/person-centered, behavioral, pharmacological), the biopsychosocial model, DSM diagnostic framework, and the evidence base for psychological treatments. Use when analyzing psychological disorders, therapeutic approaches, personality assessment, or the intersection of biology, psychology, and social context in mental health.

clinical-nlp-extractor

swaruplab/operon

Extracts medical entities (Diseases, Medications, Procedures) from unstructured clinical text using regex and simple rules (or LLM wrappers).

clinical-note-extract-skill

anthropics/healthcare

Extract structured data from clinical notes with span-level provenance and null-safety. Use when users say "extract [variables] from this note", "abstract this chart", "pull structured data from these notes", "what does this note say about [field]", or when building a chart-abstraction, registry, or cohort dataset from unstructured clinical text.

clinical-note-summarization

swaruplab/operon

Structure raw clinical notes into SOAP-format summaries with explicit contradictions, missing data, and ICD-linked assessments using the provided prompt + usage script.

clinical-question-clarifier

aipoch/medical-research-skills

Clarifies a vague clinical or biomedical research idea into a structured, bounded, searchable, researchable, and testable question. Always use this skill whenever a user has an early-stage clinical or research thought, an over-broad topic, an ill-defined evidence question, or an unclear problem statement that must be translated into a question framing suitable for literature retrieval, evidence synthesis, gap analysis, study design, or downstream protocol planning. Never jump straight to answering the substantive medical question unless the user explicitly asks for that. Focus first on question framing, boundary setting, and downstream-ready formulation.

clinical-reports

K-Dense-AI/scientific-agent-skills

Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full support with templates, regulatory compliance (HIPAA, FDA, ICH-GCP), and validation tools.

clinical-research

alirezarezvani/claude-skills

Use when designing a prospective clinical study: choosing primary and secondary endpoints, estimating sample size and power, or scoring feasibility before submission. Runs endpoint_selector.py, sample_size_estimator.py and phase_gate_scorer.py; outputs are estimates for a biostatistician to confirm.

clinical-study-info-extractor

aipoch/medical-research-skills

Batch extracts and verifies structured information (PMID, title, abstract, methodology, results, etc.) from clinical research literature using PMIDs. Use when the user wants to extract details from specific PMIDs.

clinical-trial-forecast

anthropics/life-sciences

Forecasts one registered clinical trial's probability of success from registry records and documents the user supplies: checked research, a critiqued Monte Carlo model, a cited report and a claim ledger. Runs in Claude Science with Delegation on. Use when the user asks for a trial's probability of success, asks whether a named trial (an NCT id) will meet its primary endpoint, or asks to run the clinical-trial-forecast skill.

clinical-trial-protocol-skill

swaruplab/operon

Generate clinical trial protocols for medical devices or drugs. This skill should be used when users say "Create a clinical trial protocol", "Generate protocol for [device/drug]", "Help me design a clinical study", "Research similar trials for [intervention]", or when developing FDA submission documentation for investigational products.

clinical-trial-protocol-skill

anthropics/life-sciences

Generate clinical trial protocols for medical devices or drugs. This skill should be used when users say "Create a clinical trial protocol", "Generate protocol for [device/drug]", "Help me design a clinical study", "Research similar trials for [intervention]", or when developing FDA submission documentation for investigational products.

clinical-trials

mkurman/zorai

ClinicalTrials.gov API client and analysis toolkit. Search, filter, and download trial records. Analyze trial designs, endpoints, enrollment, sponsors, and results. Automate systematic trial discovery.

clinical-trials-search

swaruplab/operon

Search ClinicalTrials.gov with natural language queries. Find clinical trials, enrollment, and outcomes using Valyu semantic search.

clinicaltrials-database

swaruplab/operon

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.

clinicaltrials-database-search

jaechang-hits/SciAgent-Skills

Query ClinicalTrials.gov API v2 for trial data. Search by condition, drug/intervention, location, sponsor, or phase; fetch details by NCT ID; filter by status; paginate; export CSV. For clinical research, patient matching, and trial portfolio analysis.

clinicaltrials-db

aipoch/medical-research-skills

Query the ClinicalTrials.gov API v2 to search for clinical trials, retrieve detailed study protocols, and analyze recruitment status; use when you need to find trials by condition/drug, export results, or verify study details by NCT ID.

clinicaltrials-gov-parser

aipoch/medical-research-skills

Monitor and summarize competitor clinical trial status changes from ClinicalTrials.gov.

clinicaltrials-skill

openai/plugins

Submit compact ClinicalTrials.gov API v2 requests for study search, metadata, enums, search areas, and field statistics. Use when a user wants concise ClinicalTrials.gov summaries

clinpgx-database

jaechang-hits/SciAgent-Skills

Query the ClinPGx (formerly PharmGKB) REST API plus the CPIC PostgREST companion API for pharmacogenomic clinical annotations, CPIC/DPWG dosing guidelines, gene-drug pairs, variant-drug associations, FDA/EMA drug labels, and PGx pathways. Two-host architecture: api.clinpgx.org for annotation records, api.cpicpgx.org for genotype→recommendation lookups. No auth. For germline pathogenicity use clinvar-database; for somatic cancer PGx use cosmic-database or opentargets-database; for drug bioactivity use chembl-database-bioactivity.

clinvar-database

jaechang-hits/SciAgent-Skills

Query NCBI ClinVar via E-utilities for variant clinical significance, pathogenicity, disease associations. Search by gene/rsID/condition/review status; returns ClinSig, submitter data, conditions, HGVS. For GWAS use gwas-database; for variant consequence prediction use Ensembl VEP.

clinvar-variation-skill

openai/plugins

Submit compact ClinVar Clinical Tables and NCBI Variation requests for search, VCV, RCV, SCV, and RefSNP lookups. Use when a user wants variant-level summaries or identifier mapping

clip

NousResearch/hermes-agent

OpenAI's model connecting vision and language. Enables zero-shot image classification, image-text matching, and cross-modal retrieval. Trained on 400M image-text pairs. Use for image search, content moderation, or vision-language tasks without fine-tuning. Best for general-purpose image understanding.

clip-seq-ago-clip-mirna-targets

swaruplab/operon

Identify direct miRNA-target interactions from AGO HITS-CLIP, AGO-CLEAR-CLIP (chimeric reads), HEAP (Halo-Ago2 mouse), chimeric eCLIP / miR-eCLIP (deep miRNA-target profiling), or CLASH using chimeric-read processing pipelines, seed-pairing analysis, and 3' auxiliary pairing rules. Use when distinguishing direct miRNA targets from indirect, integrating CLIP-derived target maps with TargetScan / miRDB / DIANA predictions, applying canonical 7mer-8mer seed matching with 3' UTR context, or recovering miRNA-mRNA chimeras at scale.

clip-seq-binding-site-annotation

swaruplab/operon

Annotate CLIP-seq peaks or crosslink sites to RNA features (5'UTR, CDS, 3'UTR, intron, splice junction, snoRNA, tRNA, ncRNA, repeat elements) with ChIPseeker, RCAS, RBP-Maps (Yeo splicing regulatory maps), and bedtools, applying feature-priority hierarchies, transcript-context resolution, and metagene aggregation. Use when characterizing where in transcripts an RBP binds, comparing peak distribution across regions, generating splicing-regulatory maps relative to alternative-splicing events, or distinguishing exonic vs intronic vs UTR binding.

clip-seq-clip-alignment

swaruplab/operon

Align preprocessed CLIP-seq reads (eCLIP, iCLIP, iCLIP2, PAR-CLIP) to genome with STAR or bowtie2 using crosslink-preserving parameters, choosing between unique-mapper-only and multi-mapper-aware alignment for repeat-binding RBPs, deciding STAR vs HISAT2 memory trade-offs, and applying ENCODE-compatible filters. Use when turning preprocessed CLIP FASTQ into a deduplicated, MAPQ-filtered BAM ready for peak calling or crosslink-site detection.

clip-seq-clip-deep-learning

swaruplab/operon

Predict RBP binding from RNA sequence using deep learning models (RBPNet sequence-to-signal, RNAProt RNN, GraphProt2 GCN with structure, DeepCLIP, DeepRiPe multi-modal CNN) for variant-effect prediction, in silico binding-site discovery, model interpretation, and transfer learning from CLIP and RBNS datasets. Use when computational prediction of RBP binding from sequence is needed, evaluating variant effects on binding without further wet-lab experiments, comparing model performance, or training a custom model on ENCODE eCLIP data.