More docs on the ARB website.
See also index of helppages.
Last update on 13. Sep 2023 .

Main topics:

SAI Administration

OCCURRENCE
DESCRIPTION
NOTES
EXAMPLES
WARNINGS
BUGS

OCCURRENCE

ARB_NT/SAI/Manage SAIs

DESCRIPTION

This tool allows to delete, rename, copy and edit 'SAI' entries. SAI is short for "sequence associated information".

The database entries contained in the selected SAI are displayed in the 'Info Box' subwindow.

Howto generate SAIs:

Most SAIs will be generated by functions from the SAI menu in the ARB main window.

It is as well possible to convert a species into an SAI (see ´Convert Species to SAI´). SAIs can be converted into species entries by pressing the <COPY TO SPECIES> button.

It is also possible to calculate SAI (from other SAI) using the ´SAI calculator´.

SAI grouping:

Each SAI belongs to a group of SAIs. These groups appear in ARB_EDIT4. Use the 'ASSIGN GROUP' button to define the group membership of the select SAI.

SAI editing:

Editing SAI data is possible using the sequence editor (see ´ARB_EDIT4 - Sequence primary and secondary structure editor´).

SAI may have alignment specific comments in each ali_xxx-CONTAINER. These comments are stored in the "_TYPE" field. The "EDIT COMMENT" button will always edit the comment associated with the alignment currently selected in the arb main window.

Using the "Edit at top" entry, you may define, which SAI show up in the top area of the sequence editor by default.

NOTES

It may be necessary to set the protection level equal or higher than that assigned to the particular 'SAI' entry.

An example macro ("keep_listed_SAIs.amc") is delivered together with ARB, which allows to delete all unwanted SAIs from a database, by defining a list of all SAIs to keep. That macro can be found using the file-prompter under ´Macros´ (see EXAMPLES section there).