Results for “scatac-seq”

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.

Queries and manages Seq structured log servers via the Seq HTTP API, covering log search, signals, alerts, dashboards, retention policies, and API key management.

Integrates Static Application Security Testing (SAST) tools—CodeQL and Semgrep—into GitHub Actions CI/CD pipelines, configuring automated code scanning, tuning rules, uploading SARIF results, and establishing quality gates that block merges on high-severity vulnerabilities.

Run the standard single-cell RNA-seq analysis pipeline with Scanpy on AnnData — QC filtering, normalization, dimensionality reduction (PCA, UMAP, t-SNE), Leiden/Louvain clustering, marker/differential expression, PAGA trajectories, and plotting. Use when analyzing scRNA-seq data through clustering, cell-type annotation, DE, or pseudotime workflows; for building or reading the .h5ad data structure itself (layers, obs/var, concatenation, backed mode) prefer alterlab-anndata instead, and for RNA velocity from spliced/unspliced counts prefer alterlab-scvelo instead. Part of the AlterLab Academic Skills suite.

Generates a complete, production-ready SaaS project boilerplate with Next.js 14+, TypeScript, Tailwind CSS, shadcn/ui, Drizzle ORM, and Stripe, including authentication, database schemas, billing integration, API routes, and a working dashboard.

Assess software supply chain security by generating SBOMs, scanning dependencies, auditing CI/CD pipelines, analyzing container images, and verifying vulnerability reachability.

Land and deploy workflow. (gstack)

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...

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.

Design and apply QA methodology for software teams: test strategy, regression testing, CI failure triage, test automation, quality gates and metrics, risk-based testing, exploratory testing, test design techniques, AI code quality gates (independent verification, acceptance-criteria testability review for agentic Spec-Driven Development), mutation-guided test hardening and review evidence (surviving mutants, weak assertions, diff-aware mutation testing), agentic eval design (dataset test design, judge-as-system-under-test, flaky-eval discipline), QA career levels (Senior/Staff/Principal), and SDET engineering (test infrastructure, gTAA, CI/CD integration). Do not use for root-cause debugging of production incidents, security implementation or threat modeling, or evaluation framework governance and statistical analysis — route those to systematic-debugging, secure-software-engineering, and agent-evals-and-observability respectively.