Running TRUST in PE mode

[11033...@qq.com]

Hi Bo,

When I run TRUST on my paired-end RNA-Seq data, it will change to single end mode during the process. It may be due to the insert size of some read pairs are too small. What I want to ask is that should I change the -I to a larger value to force TRUST running in PE mode, or allowing TRUST to switch between PE and SE mode will get better result? If I should change -I, what value will be reasonable?

Thanks!

Yang