Track Generation

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Automates the process of converting filtered BAM alignment files into normalized BigWig signal tracks for high-quality genome browser visualization. This skill streamlines complex bioinformatics tasks such as RPM normalization, scaling factor calculation, and chromosome size generation. It specifically addresses domain-specific requirements by applying Tn5 offset corrections for ATAC-seq data while maintaining raw positions for ChIP-seq, ensuring that researchers can move quickly from alignment files to biological insights with standardized, ready-to-use output files.

Características Principales

• Standardized project directory architecture and file organization
• Support for both ATAC-seq and ChIP-seq visualization protocols
• RPM (Reads Per Million) normalization for signal consistency
• Automated generation of chromosome size files and scaling factors
• Automatic Tn5 offset correction (+4/−5bp) for ATAC-seq tracks
• 2 GitHub stars

Casos de Uso

• Converting filtered BAM files into visualizable tracks for IGV or UCSC Genome Browsers
• Generating normalized signal tracks to compare multiple ATAC-seq samples
• Creating publication-ready BigWig files from ChIP-seq alignment data