How to use DASCRUBBER pipeline for PacBio

Question

[Ric]

Hi, I was able to follow the first 4 steps of the DASCRUBBER pipeline but I am not sure how to do 5 - 8 steps.

1. DASmap [-p] <path:db> [ <reads:FILE> |<reads:range> ... ]. What are <reads:FILE> |<reads:range>?
2. DASrealign [-v] [-l<int:(800)>] <block1> <block2> <source:las> <target:las>. What are -l option, <block1> <block2>, source:las and target:las?
3. REPqv <subject:db> .... Is subjet:db the source or patch db?
4. REPtrim <subject:db> ... Is subject:db the source or patch db?

Could anyone please give an example on how to use the above commands?

Thank you in advance.