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Skills for spawning external processes - AI coding agents and generic CLI commands in new terminal windows. Parent skill category for agent and terminal spawning.

Melhores práticas e padrões para scripts de shell. Utilize ao escrever scripts bash/zsh.

NGS analysis toolkit. BAM to bigWig conversion, QC (correlation, PCA, fingerprints), heatmaps/profiles (TSS, peaks), for ChIP-seq, RNA-seq, ATAC-seq visualization.

High-performance toolkit for genomic interval analysis in Rust with Python bindings. Use when working with genomic regions, BED files, coverage tracks, overlap detection, tokenization for ML models, or fragment analysis in computational genomics and machine learning applications.

Logging, error messages, and debugging patterns for React. Use when adding logging, designing error messages, debugging production issues, or improving code observability. Works for both React web and React Native.

Spawn a new terminal window to run CLI commands (ffmpeg, curl, python, etc.). Use for non-AI command execution.

Assembles genomes de novo from noisy long reads (Oxford Nanopore R9/R10/Dorado, PacBio CLR) with Flye (repeat graph), Canu (correct-trim-assemble OLC), NextDenovo, Shasta, Raven, wtdbg2, or miniasm, and reconciles bacterial assemblies into a consensus with Trycycler/Autocycler. Covers matching the input flag to the basecaller era (--nano-hq vs --nano-raw), why a raw long-read assembly is contiguou

Use when users ask how to write, explain, customize, migrate, secure, or troubleshoot GitHub Actions workflows, workflow syntax, triggers, matrices, runners, reusable workflows, artifacts, caching, secrets, OIDC, deployments, custom actions, or Actions Runner Controller, especially when they need official GitHub documentation, exact links, or docs-grounded YAML guidance.

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

End-to-end metagenomics workflow from FASTQ to taxonomic and functional profiles. Covers Kraken2 classification, Bracken abundance estimation, and HUMAnN functional profiling. Use when profiling metagenomic samples.

Generate commit message, PR title, and PR body for a pull request. Use when the user wants to create a PR, generate PR content, prepare a pull request, or fill a PR template from code changes.

Analyze cell-cell communication in spatial transcriptomics data using ligand-receptor analysis with Squidpy. Infer intercellular signaling, identify communication pathways, and visualize interaction networks. Use when analyzing cell-cell communication in spatial context.