Post date: Jun 27, 2014 3:34:22 PM
I used samtools rmdup to remove potential pcr duplices. The proportion of reads removed for each readgroup (individual x lane) are in /labs/evolution/data/timema/timema_wgrs/assembliesExperiment/cprDuplicaesPropos.txt. This information is summarized below:
mean = 0.0202559
sd = 0.01776498
Min. 1st Qu. Median Mean 3rd Qu. Max.
0.00810 0.01280 0.01560 0.02026 0.02120 0.26220