X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fmenus%2Falwview.html;h=33ec77f9fc29279cfad23d4734f1148a8aa2ae3a;hb=eb190489441b102c7dce1ee0121df7efd3e74b1a;hp=e58d4c24163d669e1e673e2a32a018cce02e4ace;hpb=d587f1aa61946dc14f6f089cf1dc2a3116cfb773;p=jalview.git
diff --git a/help/html/menus/alwview.html b/help/html/menus/alwview.html
index e58d4c2..33ec77f 100755
--- a/help/html/menus/alwview.html
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@@ -1,41 +1,75 @@
-
-
-Alignment Window Menus
-
-
-
-Alignment Window View Menu
-
- - New View (Control T)
- Creates a new view from the current alignment view.
- - Expand Views (X)
- Display each view associated with the alignment in its own alignment
- window, allowing several views to be displayed simultaneously.
- - Gather Views (G)
- Each view associated with the alignment will be displayed within its
- own tab on the current alignment window.
- - Show→(all Columns / Sequences)
- All hidden Columns / Sequences will be revealed.
- - Hide→(all Columns / Sequences)
- Hides the all the currently selected Columns / Sequences
- - Show Annotations
- If this is selected the "Annotation Panel" will be
- displayed below the alignment. The default setting is to display the
- conservation calculation, quality calculation and consensus values as
- bar charts.
- - Show Sequence Features
- Show or hide sequence features on this alignment.
- - Seqence Feature Settings...
- Opens the Sequence
- Feature Settings dialog box to control the colour and display of
- sequence features on the alignment, and configure and retrieve features
- from DAS annotation servers.
- - Overview
- Window
- A scaled version of the alignment will be displayed in a small
- window. A red box will indicate the currently visible area of the
- alignment. Move the visible region using the mouse.
-
-
-
-
+
+
+
+Alignment Window Menus
+
+
+
+
+ Alignment Window View Menu
+
+
+ - New View (Control T)
+ Creates a new view from the current alignment view.
+ - Expand Views (X)
Display
+ each view associated with the alignment in its own alignment
+ window, allowing several views to be displayed simultaneously.
+ - Gather Views (G)
Each
+ view associated with the alignment will be displayed within its
+ own tab on the current alignment window.
+ - Show→(all Columns / Sequences /
+ Sequences and Columns)
All hidden Columns /
+ Sequences / Sequences and Columns will be revealed.
+ - Hide→(all Columns / Sequences /
+ Selected Region / All but Selected Region)
+ Hides the currently selected Columns / Sequences / Region or
+ everything but the selected Region.
+ - Automatic Scrolling
+ When selected, the view will automatically scroll to
+ display the highlighted sequence position corresponding to the
+ position under the mouse pointer in a linked alignment or
+ structure view.
+ - Show Sequence Features
Show
+ or hide sequence features on this alignment.
+ - Sequence
+ Feature Settings...
Opens the Sequence
+ Feature Settings dialog box to control the colour and display of
+ sequence features on the alignment.
+ - Sequence ID Tooltip (application
+ only)
This submenu's options allow the inclusion or
+ exclusion of non-positional sequence features or database cross
+ references from the tooltip shown when the mouse hovers over the
+ sequence ID panel.
+
+ - Alignment Properties...
+ Displays some simple statistics computed for the current
+ alignment view and any named properties defined on the whole
+ alignment.
+ - Overview
+ Window
A scaled version of the alignment
+ will be displayed in a small window. A red box will indicate the
+ currently visible area of the alignment. Move the visible region
+ using the mouse.
+
+
+
+