how to determine strand from tophat output for paired-end RNA-seq data

[jay2008]

I used tophat to map paired end seq data xxx.1.fq and xxx.2.fq.
from the output file, I found most of reads are paired. the flags usually are
163 - 83
355 - 403
99 - 147
....
my question is:
how to determine the pair is from "+" strand or "-" strand?

thanks

[blanco]

You probably have figured something out by now but still:
tophat now has a '-library--type' option which can tell you from which strand the read came from (assuming the library is strand specific).