NOTE! This is a read-only copy of the ENCODE2 wiki.
Please go to the ENCODE3 wiki for current information.
SPOT Quality Scores
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.
- SPOT Scores (.xls) (Computed 20 May 2011)
Anshul's quality+peak-calling spreadsheets also contain quality measures, including strand cross-correlation metrics and enrichment measures in the same spirit as SPOT.