Запуск биоинформатических пайплайнов nf-core

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nextflow-development is a Claude Code skill that runs nf-core bioinformatics pipelines — rnaseq 3.22.2, sarek 3.7.1, and atacseq 2.1.2 — on local FASTQ files or public datasets fetched from GEO/SRA. It walks through seven structured steps: acquiring data via GSE/GSM/SRR accessions with sra_geo_fetch.py, verifying the environment (Docker, Nextflow ≥ 23.04, Java ≥ 11), running a test profile, generating and validating a samplesheet, selecting a reference genome, and launching the pipeline with -resume. Supported analyses include differential gene expression, germline and somatic variant calling, and chromatin accessibility profiling. Designed for bench scientists and researchers who need to run large-scale omics analyses without specialized bioinformatics training or manual pipeline configuration.