source: branches/lib/HELP_SOURCE/source/probedesign.hlp

#       main topics:
UP      arb.hlp
UP      glossary.hlp
UP      pt_server.hlp

#       sub topics:
SUB     probe_param.hlp
SUB     probedesignresult.hlp

# format described in ../help.readme


TITLE           Probe Design

OCCURRENCE      ARB_NT/Probes/Design Probes


DESCRIPTION     Searches for potential probe target sites within the sequence
                entries of the selected 'PT_SERVER' database.

                First mark (a single or a group of) species (see LINK{mark.hlp})
                for which probe target sites should be designed.

                Configure the parameters (see LINK{probe_param.hlp})
                and press 'GO' to start the probe design.

NOTES           The 'PT_SERVER' database ('*.arb' and '*.arb.pt') stored in
                '$ARBHOME/lib/pts' is used for probe target searching
                (not the current database!).

                The 'PT_SERVER' database has to be up-to-date or result
                calculated by probe design will be inaccurate (see LINK{probe_param.hlp}).

EXAMPLES        None


WARNINGS        Take care that only and all species are marked for which a group
                specific probe has to be designed! If the displayed tree is used
                for species marking, consider that species belonging to the
                specificity group but not contained in this tree will remain
                unmarked and treated as non-targets.

                Consequently, useful target sites may be not detected.
                Similarly marked species not related to the target species and
                not contained in the displayed tree will be treated as targets.

BUGS            No bugs known