I am using SOAPdenovo. When preparing config file, I need to set
avg_ins. I know it means the average insert size of my library. I did insert size estimation.
It reported like this:
insert size (inside of regions) mean 57,532.59 standard deviation 2,318,948.24 P25/median/p75 461/469/478
So I think I should set
avg_ins = 57,533, but examples on the internet usually set it as
avg_ins = 200. Is my understanding wrong? Any suggestions please? Thank you.
ps. my data are 100bp x 2 reads