Productivity

gptomics Bundle

Calls DNA base modifications (5mC, 5hmC, 6mA, 4mC) directly from Oxford Nanopore and PacBio HiFi long reads encoded as MM/ML SAM tags, piles them into per-site bedMethyl with modkit (or pb-CpG-tools for PacBio), and produces phased allele-specific methylation. Covers why methylation is a basecalling decision that cannot be recovered later, the MM/ML tag-drop failure that silently zeroes methylation through alignment, the MM ? vs . no-call semantics, 5mC/5hmC resolution vs bisulfite, modkit's 10th-percentile auto-threshold, and the haplotagged ASM workflow. Use when calling 5mC/5hmC/6mA from a modBAM, generating bedMethyl, preserving methylation tags through alignment, doing allele-specific or differential methylation, or QC-ing a modification BAM.

aradotso-trending-skills Skill

Download files into a GitHub repository by writing special commit messages that trigger a GitHub Actions workflow.

oimiragieo Bundle

Medusa v2 rules and best practices for modular commerce architecture, Workflow SDK, data models, services, and admin customizations.

oimiragieo Bundle

Workflow recovery protocol for resuming workflows after context loss, session interruption, or errors. Handles state reconstruction, artifact recovery, and seamless workflow continuation.

ariffazil Bundle

Runbook for GitHub & Git operations across federation repos — commit workflow, PR ops, branch discipline. v1.1.0: organ paths from organ registry, no hardcoded /root/<repo> paths.

oimiragieo Bundle

Comprehensive toolkit for survival analysis and time-to-event modeling in Python using scikit-survival. Use this skill when working with censored survival data, performing time-to-event analysis, fitting Cox models, Random Survival Forests, Gradient Boosting models, or Survival SVMs, evaluating survival predictions with concordance index or Brier score, handling competing risks, or implementing any survival analysis workflow with the scikit-survival library.

oimiragieo Bundle

QA validation and fix loop workflow — validates implementation completeness then iterates fix cycles until all acceptance criteria pass and quality gates clear

boshi-xixixi Bundle

当用户需要将需求转化为可执行任务、进行技术选型或协调多个专业 Skill 协作时使用。此 Skill 充当任务调度中心，接收需求文档并智能路由到合适的专业领域。

boshi-xixixi Bundle

当用户需要规范化 Git 使用、进行代码协作或管理 Pull Request/Merge Request 时使用。此 Skill 提供 GitHub/Gitee 平台操作、Conventional Commits 规范及 PR/MR 最佳实践指导。

ariffazil Bundle

Governed intelligence skill for AAA as the abstraction, attestation, and abduction control plane across arifOS, APEX, A-FORGE, GEOX, WEALTH, WELL, and the ariffazil profile repository. Use when the user asks to explain or design AAA, route agentic work, reduce chaos/entropy in an arifOS federation task, create AREP/task declarations, classify risk, plan multi-repo changes, review governance boundaries, or translate human intent into evidence-backed, authority-safe, recursively agentic workflows. Provides deterministic F1-F13 floor checking, bounded abduction, and FederationReceipt composition.

boshi-xixixi Bundle

当用户需要深度集成 Gitee 平台进行 Issue 管理、PR 自动化提交、代码审查或版本发布时使用。此 Skill 实现 Gitee 工作流的自动化全流程。

oimiragieo Bundle

Decision framework for agents to determine WHEN and WHETHER to use Claude Code's native cron scheduler (CronCreate/CronList/CronDelete) vs OS cron, GitHub Actions, or simple Task() delegation.

oimiragieo Bundle

Detect missing docs, undocumented files, project health issues, and coverage gaps on session start or on-demand. Scans for README gaps, TODO/FIXME counts, and test coverage holes.

ariffazil Skill

Verification-as-terminal-state doctrine + subagent verification tool. A task is done ONLY when verified. Never stop at "I changed it" — only at "it's fixed and confirmed." Runs health probes, behavior smoke tests, drift checks, and spawns verifier subagents.

ariffazil Bundle

When no permanent tool exists for a task, spawn a temporary tool via forge_ephemeral. The capability metabolism engine — generate, test, use, then dissolve. Prevents tool accumulation. Adapts without accumulating permanent state. Wolf Cabinet Ψ Survival — "I need to do X but no tool exists."

ariffazil Skill

Runtime for musyawarah (independent 333 ARCHITECT + 555 AUDITOR) then gotong-royong (sequential execute hop). Authority star, evidence as position files. Not a chatboard. Grok: workflow musyawarah-gotong.

ariffazil Bundle

Use when task may be over-engineered. Route to the SMALLEST capability that accomplishes it. Prevent yak-shaving. Use when task may be over-engineered. Route to the SMALLEST capability that accomplishes it. Prevent yak-shaving. Route every task to the SMALLEST capability that can accomplish it. Prevents over-engineering, yak-shaving, and reflexive tool escalation. Enforces one-owner-per-task, idempotent actions, and strict queues. Ask: "Can a simpler tool do this?" before reaching for the powerful one.

tibsfox Skill

GSD tutorial, command reference, and workflow explainer. Explains what a GSD workflow command does before you run it. Activates when user is new to GSD, asks about commands, wants to understand workflows, or mentions preview.

oimiragieo Bundle

Requirements gathering workflow for specification creation. Use when starting a new feature, task, or project that needs structured requirements.

oimiragieo Bundle

Collaborative document creation via a structured three-stage workflow. Use for writing specs, PRDs, design docs, proposals, RFCs, and any long-form document where quality and clarity matter. Brainstorms 5-20 options per section, builds iteratively, and tests with reader sub-agents.

tibsfox Skill

Applying motion study and time analysis to household work. Based directly on Lillian Gilbreth's *The Home-Maker and Her Job* and *Cheaper by the Dozen*, this skill covers the therblig-motion catalog, task decomposition, batch processing, parallelism, routine chart design, and the ergonomics of work surfaces. Use when diagnosing why a household is running out of time, designing a weekly routine, teaching task sharing to children, or reducing the friction of any repeated household task.

crestapps Bundle

Guidance for working with the Orchard Core admin panel, including admin controllers, menu registration, dashboard widgets, admin theme customization, settings pages, and admin-specific shapes and zones. Use this skill when requests mention Orchard Core Admin Panel, TheAdmin Theme, Admin Controllers, Admin Route URL Generation, Admin Menu Registration, Adding an Icon to an Admin Menu Item, or closely related Orchard Core implementation, setup, extension, or troubleshooting work. Strong matches include work with OrchardCore.Admin, OrchardCore.DisplayManagement.Notify, OrchardCore.Navigation, OrchardCore.Email, OrchardCore.Search, OrchardCore.Users, OrchardCore.Roles, OrchardCore.DisplayManagement.Handlers, OrchardCore.DisplayManagement.Views. It also helps with admin examples, Admin Menu Registration, Adding an Icon to an Admin Menu Item, Menu Grouping and Ordering, plus the code patterns, admin flows, recipe steps, and referenced examples captured in this skill.

gptomics Bundle

Installs 425 bioinformatics skills covering sequence analysis, RNA-seq, single-cell, variant calling, metagenomics, structural biology, and 56 more categories. Use when setting up bioinformatics capabilities or when a bioinformatics task requires specialized skills not yet installed.

ariffazil Bundle

META-MESA: Orthogonal skill taxonomy + intent→skill router for Copilot CLI. THE single skill that tells Copilot which domain skill to load based on task context. Load this FIRST when uncertain which skill to use. Covers all 147 federation skills organized into 9 orthogonal layers. DO NOT load domain skills blindly — route through this.

crestapps Bundle

Tests Orchard Core CMS features through browser automation. Use when the user needs to build, run, setup, or test Orchard Core functionality including admin features, content management, media library, and module testing. Use this skill when requests mention Orchard Core Feature Testing, Prerequisites, Core Workflow, Step 1 Build, Step 2 Run Application (Background), Get or Create Session Port, or closely related Orchard Core implementation, setup, extension, or troubleshooting work. Strong matches include work with OrchardCore.Cms.Web, OrchardCore.Cms.Web.csproj, AGENTS.md. It also helps with admin navigation, common features, debugging, setup wizard, plus the code patterns, admin flows, recipe steps, and referenced examples captured in this skill.

ariffazil Skill

12 graph engineering patterns for agentic workflow design. Reference skill — load when designing new agentic systems, auditing existing workflows, or deciding between single-loop vs graph architecture. Includes when-graph-is-wrong checklist. Source: @0xwhrrari (Kollective.xyz), mapped to arifOS federation.

ariffazil Skill

Intelligently compact context while preserving constitutional knowledge and active task state

gptomics Bundle

Extracts UMIs and collapses reads to original molecules with umi_tools (directional dedup) or builds error-corrected single-strand/duplex consensus reads with fgbio. Use when the library has UMIs and accurate molecule counting or below-sequencer-floor error correction is needed - single-cell, low-input RNA-seq, targeted panels, and ctDNA/liquid-biopsy rare-variant detection. For UMI extraction during QC use fastp-workflow; do not dedup non-UMI bulk RNA-seq.

ariffazil Bundle

A-R-I-F Architect role. Trigger when the task is ambiguous, strategic, architectural, or requires planning and scoping.

ariffazil Bundle

Verification-as-terminal-state skill. A task is done ONLY when verified. Never stop at "I changed it" — only at "it's fixed and confirmed." Runs health probes, behavior smoke tests, and drift checks.

gptomics Bundle

Removes sequencing adapters from FASTQ reads with Cutadapt and Trimmomatic, including paired-end read-through, small-RNA 3' adapters, amplicon primers, and anchored/linked adapters. Use when FastQC shows adapter content climbing toward the 3' end, when inserts are shorter than the read length (small-RNA, cfDNA, FFPE), or before assembly/k-mer analysis. For all-in-one trimming use fastp-workflow; for quality/length filtering use quality-filtering.

gptomics Bundle

Filters reads by quality, length, N content, and complexity with Trimmomatic, fastp, and Cutadapt, including sliding-window trimming, per-read unqualified-base filtering, and 2-color poly-G removal. Use when reads have poor-quality tails, when an assembly or k-mer workflow needs clean input, or when a junk read subpopulation must be dropped. For adapter removal use adapter-trimming; for all-in-one preprocessing use fastp-workflow.

ariffazil Bundle

Class-level umbrella for GitHub operations — auth, repo management, PR lifecycle, issues, code review. Each op is a labeled section; load the relevant one. BIJAKSANA: XML-tagged for Claude, numbered steps for Codex, imperative for Hermes.

ariffazil Bundle

Himalaya CLI: IMAP/SMTP email from terminal.

sboghossian-mini-claude-for-legal Skill

Use when evaluating whether a legal task is better served by Thomson Reuters CoCounsel (TR's flagship US legal AI, Westlaw-integrated) versus Louis. CoCounsel is recommended when a client already has a TR enterprise license, needs Bluebook-precise Westlaw citations, or is working on a US-law-heavy matter. Louis is preferred for MENA jurisdictions, Arabic-language work, and multi-jurisdictional comparative analysis. This skill also documents CoCounsel's capabilities for competitive awareness.

oimiragieo Bundle

TDD task implementation patterns - red-green-refactor cycle, phase checkpoints, git commits, and verification protocols for quality assurance.