CSC

double_strand

double_strand
 -io            io_handle:integer
 -contigs       identifiers:strings
?-max_nmismatch count:integer(8)
?-max_pmismatch percentage:float(8.)

This command searches for single stranded regions and attempts to make them double stranded data by finding neighbouring readings with hidden data that is good enough to reveal. The function returns no value but will generate a Tcl error if an error occurs.

-io io_handle

The database IO handle returned from a previous open_db call.

-contigs identifiers

This specifies the list of contigs to double strand. The {contig start end} syntax may be used for an identifier to double strand only a region of the contig, otherwise all of it is double stranded.

-max_nmismatch

This cifies the maximum number of mismatches allowed in the extended dat between the reading and the consensus. The default is 8.

-max_pmismatch

This cifies the maximum percentage mismatch allowed in the extended dat between the reading and the consensus. The default is 8.0.