3 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
4 * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
6 * This file is part of Jalview.
8 * Jalview is free software: you can redistribute it and/or
9 * modify it under the terms of the GNU General Public License
10 * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
12 * Jalview is distributed in the hope that it will be useful, but
13 * WITHOUT ANY WARRANTY; without even the implied warranty
14 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15 * PURPOSE. See the GNU General Public License for more details.
17 * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
20 <p><strong>Alignment Window Select Menu</strong></p>
23 <li><a href="../features/search.html"><strong>Find... (Control F)</strong></a><br>
24 <em>Opens the Find dialog box to search for residues, sequence name or residue
25 position within the alignment and create new sequence features from the queries.
27 <li><strong>Select All (Control A)</strong><strong><br>
28 </strong><em>Selects all the sequences and residues in the alignment. <br>
29 Use <CTRL> and A (<APPLE> and A on a MacOSX) to select all.</em></em></li>
30 <li><strong>Deselect All (Escape)<br>
31 </strong><em>Removes the current selection box (red dashed box) from the
32 alignment window. All selected sequences, residues and marked columns
33 will be deselected. </em><em> <br>
34 Use <ESCAPE> to deselect all.</em></li>
35 <li><strong>Invert Sequence Selection (Control I)<br>
36 </strong><em>Any sequence ids currently not selected will replace the
37 current selection. </em></li>
38 <li><strong>Invert Column Selection (Control Alt I)<br>
39 </strong><em>Any columns currently not selected will replace the current
40 column selection. </em></li>
41 <li><strong>Create Group (Control G)<br></strong>
42 <em>Create a group containing the currently selected sequences.</em></li>
43 <li><strong>Remove Group (Shift Control G)<br></strong>
44 <em>Ungroup the currently selected sequence group. (Create/Remove group new in Jalview 2.8.1)</em></li>
45 <li><strong>Make Groups for selection<br/></strong>
46 <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>
47 <li><strong>Undefine Groups (Control U)<br>
48 </strong><em>The alignment will be reset with no defined groups.<br>
49 <strong>WARNING</strong>: This cannot be undone.</em></li>