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+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1)
+ * Copyright (C) 2014 The Jalview Authors
+ *
+ * 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
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+ * Jalview is distributed in the hope that it will be useful, but
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+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
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+-->
<head>
<title>Alignment Window Menus</title>
</head>
<li><strong>Autocalculated Annotation<br></strong>Settings for the display of autocalculated annotation.
<ul><li>
<strong>Apply to all groups<br></strong>
- When ticked, any settings will be applied to all autocalculated annotation.
+ When ticked, any modification to the current settings will be applied to all autocalculated annotation.
</li>
<li>
<strong>Show Consensus Histogram<br></strong>
Enable or disable the display of the histogram above the consensus sequence.
</li>
<li>
- <strong>Show Consensus Profile<br></strong>
+ <strong>Show Consensus Logo<br></strong>
Enable or disable the display of the sequence logo above the consensus sequence.
</li>
- <li>
+ <li><strong>Normalise Consensus Logo<br>
+ </strong><em>When enabled, scales all logo stacks to the same height,
+ making it easier to compare symbol diversity in highly variable
+ regions.</em></li>
+
+ <li>
<strong>Group Conservation<br></strong>
When ticked, display a conservation row for all groups (only available for protein alignments).
</li>
git://source.jalview.org / jalview.git / blobdiff