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- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
* Copyright (C) 2014 The Jalview Authors
*
* This file is part of Jalview.
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* Jalview is free software: you can redistribute it and/or
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* of MERCHANTABILITY or FITNESS FOR A PARTICULAR
* PURPOSE. See the GNU General Public License for more details.
*
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* The Jalview Authors are detailed in the 'AUTHORS' file.
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+ -->
<head><title>Alignment Annotation</title></head>
<body>
<p><strong>Alignment Annotation</strong></p>
href="annotationsFormat.html">Annotations File</a> dragged into the
alignment window or loaded from the alignment's file menu.
</p>
+<p><a name="seqannots"/><strong>Sequence Reference Annotation</strong>
+</p>
+<p>
+ Sequence reference annotation is created from 3D structure
+ data, and from the results of sequence based prediction of
+ <a href="../webServices/jnet.html">secondary structure</a> and <a
+ href="../webServices/proteinDisorder.html">disordered region</a>
+ prediction methods.
+</p>
<p><strong>Interactive Alignment Annotation</strong></p>
<p>
Annotation rows are added using the <strong>Annotation Label</strong>
area (below the sequence ID area).
</p>
<ul>
- <li>Add New Row<br>
+ <li><strong>Add New Row</strong><br>
<em>Adds a new, named annotation row (a dialog box will pop up for you to
enter the label for the new row). </em> </li>
- <li>Hide Row<br>
+ <li><strong>Edit Label/Description</strong><br>
+ <em>This opens a dialog where you can change the name (displayed label), or the description
+ (as shown on the label tooltip) of the clicked annotation. </em> </li>
+ <li><strong>Hide This Row</strong><br>
<em>Hides the annotation row whose label was clicked in order to bring up
the menu.</em> </li>
- <li>Delete Row<br>
+ <li><strong>Hide All <em><label></em></strong><br>
+ <em>Hides all annotation rows whose label matches the one clicked.
+ (This option is only shown for annotations that relate to individual sequences,
+ not for whole alignment annotations. Since Jalview 2.8.2.)</em> </li>
+ <li><strong>Delete This Row</strong><br>
<em>Deletes the annotation row whose label was clicked in order to bring up
the menu.</em> </li>
- <li>Show All Hidden Rows<br>
+ <li><strong>Show All Hidden Rows</strong><br>
<em>Shows all hidden annotation rows.</em> </li>
<li><strong>Export Annotation</strong> <em>(Application only)</em><br>
<em>Annotations can be saved to file or output to a text window in either the
git://source.jalview.org / jalview.git / blobdiff