source: branches/tree/HELP_SOURCE/source/species_join.hlp

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UP      arb.hlp
UP      glossary.hlp

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#************* Title of helpfile !! and start of real helpfile ********
TITLE           Join species

OCCURRENCE      ARB_NT/Species/Merge Species/Join marked species

DESCRIPTION

            WARNING: This module is obsolete by newer modules. See NOTES below!

            "Join species" merges several similar species into one species.

            All database fields and the sequences get concatenated.

            - Mark all species that should be examined for similarity.

            - Select a database field entry from the list
              to set a similarity-criterion used to detect
              candidates for joining (for e.g., full_name).

            - Check separators for fields and sequences.

            - Press GO to start.

EXAMPLES

                For example you have a 23s and a 16s database and you want
                to append the 16s to the 23s sequences than you have to do:

                        - merge the 16s to the 23s sequences.

                        - create a field 'species_name' which holds the
                          real name of the species.
                          That means the species_name of the 16s sequence
                          should be the same as of the 23s seq.
                          Do not use the 'name'-field because it is
                          used as a UNIQUE id to the database.

                        - ARB_NT/Species/Merge Species/Join Marked Species
                          and use the field 'species_name'.


NOTES           There's a second, newer function to merge species: see LINK{merge_species.hlp}

                There's a special new function to concatenate alignments: see LINK{concatenate.hlp}

WARNINGS        'Join marked species' does only merge fields of type STRING, all other fields are skipped
                (taken from one of the joined species).

BUGS            No bugs known