HLab:Qualitymetrics

ChIP-seq

• FRIP

  Fraction of Reads in Peaks, a value of greater than or equal to .01 is considered good.

• NSC
• RSC
• Complexity

  This is computed on a sampling of the reads if more than 10M, using Georgi's method. A value greater than or equal to .80 is considered good.

RNA-seq

• FRIT

  Fraction of Reads in Target, for Total script this is anywhere in the gene.  

• Percent rRNA

  Percent of the alignments that overlap rRNA as downloaded from UCSC.

• Number of expressed genes
• Number of spike-ins