<html>
-<head>
-Alignment Window Menus
-</head>
-<body>
+<!--
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
+ * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+-->
+<head><body>
<p><strong>Alignment Window Select Menu</strong></p>
<ul>
- <li><strong><a href="../features/search.html">Find...
- (Control F)</a></strong><em><br>
- Opens the Find dialog box to search for residues, sequence name or
- residue position within the alignment and create new sequence features
- from the queries.
- <li><strong>Select All (Control A)<br>
- </strong><em>Selects all the sequences and residues in the alignment. <br>
- Use <CTRL> and A (<APPLE> and A on a MacOSX) to select all.</em></li>
+
+ <li><a href="../features/search.html"><strong>Find... (Control F)</strong></a><br>
+ <em>Opens the Find dialog box to search for residues, sequence name or residue
+ position within the alignment and create new sequence features from the queries.
+ </em>
+ <li><strong>Select All (Control A)</strong><strong><br>
+ </strong><em>Selects all the sequences and residues in the alignment. <br>
+ Use <CTRL> and A (<APPLE> and A on a MacOSX) to select all.</em></em></li>
<li><strong>Deselect All (Escape)<br>
</strong><em>Removes the current selection box (red dashed box) from the
alignment window. All selected sequences, residues and marked columns
<li><strong>Undefine Groups (Control U)<br>
</strong><em>The alignment will be reset with no defined groups.<br>
<strong>WARNING</strong>: This cannot be undone.</em></li>
+ <li><strong>Make Groups<br/></strong>
+ <em>The currently selected groups of the alignment will be subdivided according to the contents of the currently selected region. <br/>Use this to subdivide an alignment based on the different combinations of residues observed at specific positions. (new in jalview 2.5)</em></li>
</ul>
</body>
</html>
git://source.jalview.org / jalview.git / blobdiff