bio-workflows-methylation-pipeline
Methylation Pipeline
Complete workflow from bisulfite sequencing FASTQ to differentially methylated regions.
Workflow Overview
FASTQ files
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[1. QC & Trimming] -----> fastp/Trim Galore
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[2. Alignment] ---------> Bismark
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[3. Deduplication] -----> deduplicate_bismark
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bioskills
Installs 425 bioinformatics skills covering sequence analysis, RNA-seq, single-cell, variant calling, metagenomics, structural biology, and 56 more categories. Use when setting up bioinformatics capabilities or when a bioinformatics task requires specialized skills not yet installed.
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Reusable plotting functions for common omics visualizations. Custom ggplot2/matplotlib implementations of volcano, MA, PCA, enrichment dotplots, boxplots, and survival curves. Use when creating volcano, MA, or enrichment plots.
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