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This skill empowers researchers and bench scientists to run sophisticated nf-core bioinformatics pipelines, including rnaseq, sarek, and atacseq, without needing deep command-line expertise. It handles the end-to-end workflow from acquiring public datasets from GEO/SRA and validating local environments to generating samplesheets and executing large-scale omics analyses using Docker or Singularity. By providing standardized implementation patterns and automated checks, it ensures reproducible and robust biological data processing for gene expression, variant calling, and chromatin accessibility studies.
