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john.richter at aya.yale.edu
Wed Jan 19 14:22:55 PST 2005
DAG-Edit 1.419-beta5 is now available at
Most of the changes are bug fixes, but there is one significant difference:
there are now 3 ways to apply filters when saving or viewing the ontology:
* LOOSE - The original method. Every path to every terms that matches the
filter will be shown. Some terms that don't match the filter may be shown if
they are part of a path to a term that does match the filter.
* STRICT - This method shows ONLY terms that match the filter. This means that
a term that matches the filter may not appear. This can happen if the only
paths from the root to the matching term pass through one or more
non-matching terms. This is the preferred way to filter categories, because
if a term belongs to a category (like "go_slim" or "prok" in the gene
ontology) all of its ancestors usually belong to the category as well.
* FEWEST_PATHS - This method first does a strict match, and then adds in as
few non-matching nodes as possible so that ALL matching terms are shown. Some
non-matching nodes may still appear, but far fewer than will be shown with
the LOOSE method.
P.S. This version of DAG-Edit uses the upgraded drag and drop system that will
be used in OBO-Edit. If you are adventurous, you can test out OBO-Edit's new
and improved term editor panel by going into the Layout Manager (inside the
Configuration Plugin) and changing any instance of the string
The new term editor panel doesn't require you to hold down control or shift
while dragging. Just grab some terms and drag them onto another term. A menu
will pop up asking what you want to do (copy, move, merge, add parents, etc).
You can even drop a relationship type onto a term to change its relationship
to the parent.
If you know what you want to do with the terms and don't want to bother with a
menu, you can hold down various keyboard keys to indicate what you want to
happen when you drop the terms. When you hold down the key, the label at the
top of the terms you're dragging will change to show the current operation.
The hotkeys are:
C - Copy
X - Move
M - Merge
T - Change type (must be dragging a term relationship type)
Please test this out if you're curious. I'm happy to help anyone who can't get
it to work...
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