Difference between revisions of "HLab:Qualitymetrics"
From CCGB
(Created page with "ChIP-seq *FRIP *NSC *RSC *Complexity RNA-seq *FRIT *Percent rRNA *Number of expressed genes *Number of spike-ins") |
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| Line 1: | Line 1: | ||
ChIP-seq | ChIP-seq | ||
*FRIP | *FRIP | ||
| − | *NSC | + | Fraction of Reads in Peaks, a value of greater than or equal to .01 is considered good. |
| + | *NSC | ||
*RSC | *RSC | ||
*Complexity | *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 | RNA-seq | ||
*FRIT | *FRIT | ||
| + | Fraction of Reads in Target, for Total script this is anywhere in the gene. | ||
*Percent rRNA | *Percent rRNA | ||
| + | Percent of the alignments that overlap rRNA as downloaded from UCSC. | ||
*Number of expressed genes | *Number of expressed genes | ||
*Number of spike-ins | *Number of spike-ins | ||
Revision as of 14:09, 1 August 2014
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
