Input quality scores are encoded as Phred+33. (Default: on)
=item B<--phred64-quals>
-
+
Input quality scores are encoded as Phred+64 (default for GA Pipeline ver. >= 1.3). (Default: off)
=item B<--solexa-quals>
-
+
Input quality scores are solexa encoded (from GA Pipeline ver. < 1.3). (Default: off)
=item B<--forward-prob> <double>