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SPOT Quality Scores

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SPOT (Signal Portion Of Tags) scores are quality scores computable on DNase-seq, ChIP-seq and other short-read sequencing data sets. The method is described in a presentation on data quality assessment from the May 2011 joint meeting.

SPOT scores computed across all DNase-seq, ChIP-seq and some RNA-seq datasets were computed by Eric Rynes from the UW Stam lab, and are available here for download.

Anshul's quality+peak-calling spreadsheets also contain quality measures, including strand cross-correlation metrics and enrichment measures in the same spirit as SPOT.