CSC

find_taq_terminator

find_taq_terminator
 -io            io_handle:integer
 -contigs       identifiers:strings
?-avg_len       length:integer(350)?

This command searches for places where rerunning a reading as a dye terminator reaction will solve a problem. Currently these places are identified by the presence of a COMP (compression) or STOP annotation. 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 search. The {contig start end} syntax may be used for an identifier to search only a region of the contig, otherwise all of it is searched.

-avg_len length

This specifies the expected length achieved by a terminator reading . This is used to determine which readings are suitable for rerunning and for the amount of coverage available. The default is 350 base pairs.