Results for “g-suite”

Enforces a mandatory pre-commit/pre-PR testing gate: detects the test stack, runs the full suite, fixes failures, creates minimal tests when none exist, and verifies coverage before allowing commits.

Generate and run MATLAB unit tests using matlab.unittest and matlab.uitest. Parameterized tests, fixtures, mocking, coverage analysis, CI/CD with buildtool, app testing with gestures. Use when creating tests, writing test classes, running test suites, checking coverage, testing apps, or validating MATLAB code.

Runs Python code in the cloud with Modal — serverless containers, on-demand GPUs, and autoscaling. Use when deploying ML models, running batch processing jobs, scheduling compute-intensive tasks, or serving APIs that need GPU acceleration or dynamic scaling. Part of the AlterLab Academic Skills suite.

Production-grade Playwright testing toolkit. Use when the user mentions Playwright tests, end-to-end testing, browser automation, fixing flaky tests, test migration, CI/CD testing, or test suites. Generate tests, fix flaky failures, migrate from Cypress/Selenium, sync with TestRail, run on BrowserStack. 55 templates, 3 agents, smart reporting.

Production-grade Playwright testing toolkit. Use when the user mentions Playwright tests, end-to-end testing, browser automation, fixing flaky tests, test migration, CI/CD testing, or test suites. Generate tests, fix flaky failures, migrate from Cypress/Selenium, sync with TestRail, run on BrowserStack. 55 templates, 3 agents, smart reporting.

Google Cloud Platform SDK integration. Cloud Functions, Firestore, Cloud Storage, Pub/Sub, BigQuery, and Cloud Run. Node.js and Python client libraries. USE WHEN: user mentions "GCP", "Google Cloud", "Cloud Functions", "Firestore", "Cloud Storage", "Pub/Sub", "BigQuery", "Cloud Run", "Firebase" DO NOT USE FOR: AWS services - use `aws`; Azure services - use `azure`; Firebase Auth - use auth skills

Chunked, compressed N-dimensional arrays for cloud storage with Zarr — parallel I/O, S3/GCS integration, and NumPy/Dask/Xarray compatibility. Use when storing or reading large N-D scientific arrays, streaming chunked data to/from cloud object stores, or building large-scale scientific computing pipelines. Part of the AlterLab Academic Skills suite.

Infer gene regulatory networks (GRNs) from expression matrices using arboreto's scalable GRNBoost2 and GENIE3 tree-ensemble algorithms with Dask-distributed computation. Use when analyzing bulk or single-cell RNA-seq transcriptomics to map transcription-factor-to-target-gene regulatory interactions, build adjacency networks, or run the GRN-inference step of a SCENIC pipeline on large datasets. Part of the AlterLab Academic Skills suite.

Serverless computing patterns. AWS Lambda, Azure Functions, GCP Cloud Functions. Deployment frameworks: Serverless Framework, AWS SAM, SST. Cold starts, event sources, and production optimization. USE WHEN: user mentions "serverless", "Lambda", "cloud function", "Azure Functions", "SAM", "SST", "Serverless Framework", "cold start", "FaaS" DO NOT USE FOR: container orchestration - use `kubernetes` or `docker`; always-on servers - use backend framework skills

Run ESM protein language models — ESM3 for generative multimodal protein design across sequence, structure, and function, and ESM C for efficient embeddings and representations — locally or via the cloud Forge API. Use when working with protein sequences, structures, or function prediction, designing novel proteins, generating protein embeddings, performing inverse folding, or doing protein-engineering tasks. Part of the AlterLab Academic Skills suite.

Azure cloud services SDK integration. Azure Functions, Cosmos DB, Blob Storage, Service Bus, Azure AD (Entra ID), and Key Vault. Node.js and .NET SDKs. USE WHEN: user mentions "Azure", "Azure Functions", "Cosmos DB", "Blob Storage", "Service Bus", "Azure AD", "Entra ID", "Key Vault", "Azure SDK" DO NOT USE FOR: AWS services - use `aws`; GCP services - use `gcp`; Terraform for Azure - use `terraform`

AWS SDK integration for Node.js (v3) and Python (boto3). Core services: S3, Lambda, DynamoDB, SQS, SNS, CloudWatch, IAM. Configuration, credentials, and production patterns. USE WHEN: user mentions "AWS", "Amazon Web Services", "Lambda", "DynamoDB", "SQS", "SNS", "CloudWatch", "IAM", "boto3", "aws-sdk" DO NOT USE FOR: S3 file operations - use `cloud-storage`; SQS messaging patterns - use `sqs`; Azure/GCP - use respective skills

The AlterLab front door and multi-agent launcher — routes a task to the right AlterLab skill(s) when the user invokes the suite without naming one, and for a multi-stage goal (or on the keyword 'alterflow', aliases 'alterresearch' / 'ultralab') it CLARIFIES the goal with a few questions, SELECTS the skills the task needs, and runs a dynamic multi-agent workflow composing them (via alterlab-workflow-orchestration, alterlab-research-pipeline, or alterlab-ssci-orchestrator). Triggers on 'use AlterLab skills', 'which AlterLab skill for X', 'is there an AlterLab skill for…', a multi-stage research goal, 'alterflow …', or any generic AlterLab request where the user does not know skill names. It always asks clarifying questions before executing a multi-step run. Use when someone references AlterLab generically, describes a multi-stage goal, or fires the alterflow keyword; when the user already names a specific skill, defer to that skill directly. Part of the AlterLab Academic Skills suite.

Apache Pulsar cloud-native messaging and streaming. Covers topics, subscriptions, Pulsar Functions, and geo-replication. Use for multi-tenant, geo-distributed messaging systems. USE WHEN: user mentions "pulsar", "bookkeeper", "multi-tenancy", "geo-replication", "pulsar functions", asks about "cloud-native streaming", "tenant isolation", "global messaging" DO NOT USE FOR: simple queues - use `rabbitmq` or `sqs`; AWS-native - use `sqs`; Azure-native - use `azure-service-bus`; GCP-native - use `google-pubsub`; lightweight - use `nats`; JMS - use `activemq`

Unity XR — XR Interaction Toolkit 3.x (Interactor/Interactable/Manipulation), AR Foundation (planes, anchors, image tracking, body tracking), OpenXR, hand tracking on Quest/Vision OS. USE WHEN: VR/AR/MR projects, integrating XR controllers, AR plane detection, XR locomotion, hand tracking, eye tracking, OpenXR features. DO NOT USE FOR: regular 3D gameplay (use `unity-physics-anim`); rendering pipeline (use `unity-rendering` — XR has URP-specific considerations).

Apache Kafka event streaming platform. Covers producers, consumers, topics, partitions, Kafka Streams, and Connect. Use for high-throughput event-driven architectures and real-time data pipelines. USE WHEN: user mentions "kafka", "event streaming", "kafka streams", "consumer groups", "topic partitions", asks about "high throughput messaging", "event sourcing", "log aggregation", "real-time pipelines" DO NOT USE FOR: simple queues - use `rabbitmq` or `activemq`; cloud-native lightweight - use `nats`; AWS-native - use `sqs`; Azure-native - use `azure-service-bus`; GCP-native - use `google-pubsub`

Configures GKE storage including PVCs, PersistentVolumes, Filestore, and GCS FUSE with best practices for production workloads.

Hardens Google Kubernetes Engine (GKE) clusters with Workload Identity, Secret Manager, RBAC, Binary Authorization, Network Policies, and Pod Security Standards.

Fine-tune open models or Gemini models using Agent Platform infrastructure, from environment setup through data preparation, job configuration, monitoring, and deployment.

Redacts, previews, and inserts sanitized agent session transcripts into GitHub PR/issue bodies for provenance.

Configure Gemini and Codex CLI tools with Cloudflare AI Gateway endpoints and MCP servers.

Drives the Rowan cloud quantum-chemistry platform via its Python API for computational chemistry — pKa prediction, geometry optimization, conformer searching, molecular property calculations, protein-ligand docking (AutoDock Vina), and AI protein cofolding (Chai-1, Boltz-1/2), with cloud compute and no local setup. Use when running DFT or semiempirical methods, neural network potentials (AIMNet2), molecular property or protein-ligand binding predictions, or automated computational chemistry pipelines. Part of the AlterLab Academic Skills suite.

Auto-review pipeline — reads the full CEO, design, eng, and DX review skills from disk and runs them sequentially with auto-decisions using 6 decision principles. Surfaces taste decisions (close approaches, borderline scope, codex disagreements) at a final approval gate. One command, fully reviewed plan out. Use when asked to "auto review", "autoplan", "run all reviews", "review this plan automatically", or "make the decisions for me". Proactively suggest when the user has a plan file and wants to run the full review gauntlet without answering 15-30 intermediate questions. (gstack) Voice triggers (speech-to-text aliases): "auto plan", "automatic review".

Amazon SQS managed message queue service. Covers standard and FIFO queues, dead-letter queues, and integration patterns. Use for AWS-native serverless and microservices architectures. USE WHEN: user mentions "sqs", "aws queues", "fifo queue", "lambda trigger", "sns to sqs", asks about "aws messaging", "serverless queues", "standard queue", "visibility timeout" DO NOT USE FOR: event streaming - use `kafka` or AWS Kinesis; Azure-native - use `azure-service-bus`; GCP-native - use `google-pubsub`; on-premise - use `rabbitmq` or `activemq`; complex routing - use `rabbitmq`

Build, slice, concatenate, read, and write AnnData annotated data matrices (obs, var, X, layers, obsm, uns) — the scverse data STRUCTURE, not an analysis pipeline. Use when creating or wrangling .h5ad/zarr files, managing cell and gene annotations, concatenating batches, or handling layers/obsm/backed-mode; for the QC, normalization, clustering, UMAP, and differential-expression analysis pipeline prefer alterlab-scanpy instead, and for RNA velocity from spliced/unspliced layers prefer alterlab-scvelo instead. Part of the AlterLab Academic Skills suite.

Run RNA velocity analysis with scVelo on single-cell RNA-seq data — estimate cell-state transitions from spliced/unspliced mRNA dynamics, infer trajectory direction, compute latent time, and identify driver genes. Use when adding directionality to trajectories or studying differentiation dynamics from spliced/unspliced layers (velocyto/STARsolo output); for the general QC, clustering, UMAP, and differential-expression analysis pipeline prefer alterlab-scanpy instead, and for .h5ad data-structure I/O and layer wrangling prefer alterlab-anndata instead. Part of the AlterLab Academic Skills suite.

Orchestrates the full academic research pipeline (research, write, integrity check, review, revise, re-review, re-revise, final integrity check, finalize), coordinating alterlab-deep-research, alterlab-paper-writer, and alterlab-paper-reviewer into a seamless 10-stage workflow with mandatory integrity verification, two-stage peer review, and reproducible quality gates. Use when the request mentions academic pipeline, research to paper, full paper workflow, paper pipeline, end-to-end paper, research-to-publication, or complete paper workflow. Part of the AlterLab Academic Skills suite.

Security controls for RAG. Indirect prompt-injection via retrieved documents, PII detection/redaction (Microsoft Presidio, AWS Comprehend), multi-tenant isolation, ACL-aware retrieval with row-level/metadata filtering, data-leakage prevention, jailbreak hardening on retrieved context, GDPR right-to-be-forgotten in vector DBs. USE WHEN: user mentions "prompt injection RAG", "indirect prompt injection", "PII redaction", "Presidio", "ACL RAG", "row-level security", "multi-tenant RAG isolation", "GDPR vector DB", "right to be forgotten", "jailbreak", "data leakage RAG" DO NOT USE FOR: hallucination detection - use `rag-guardrails`; tenancy scaling patterns - use `rag-production`; audit tracing schema - use `rag-observability`

Audits and repairs Markdown link health across a skills repo via a four-tier pipeline (config hardening, intra-repo file-ref fixes, external URL substitutions, residual exclusions) and enforces a Tier 3 substitution guardrail that prevents regressions of previously-passing links; designed for lychee-based GitHub Actions link checkers but generalizes to markdown-link-check and similar tools. Use when the request mentions link audit, dead links, link health, lychee, broken links, link checker, markdown link audit, link-health audit, 404 audit, check-links failing, CI link-check, or 連結健檢, 死鏈, 失效連結, 斷鏈檢查. Part of the AlterLab Academic Skills suite.

Apply the scGPT single-cell foundation model (Cui 2024) to annotate and embed cells — zero-shot and fine-tuned cell-type annotation, gene/cell embeddings, batch integration, and gene-regulatory / perturbation inference from AnnData. Use when annotating cell types with a pretrained foundation model, generating scGPT embeddings, integrating batches with a transformer, or running zero-shot single-cell inference on an h5ad. For probabilistic latent models (scVI/scANVI) prefer alterlab-scvi-tools; for the standard QC→cluster→UMAP→DE pipeline prefer alterlab-scanpy; for the AnnData data structure itself prefer alterlab-anndata; for protein language models prefer alterlab-esm. Part of the AlterLab Academic Skills suite.