git://source.jalview.org / jalview.git / blobdiff
? search:
summary | shortlog | log | commit | commitdiff | tree
raw | inline | side by side
2.3 updates
[jalview.git] / help / html / keys.html
diff --git a/help/html/keys.html b/help/html/keys.html
index ea6a9e8..61c55cc 100755 (executable)
--- a/help/html/keys.html
+++ b/help/html/keys.html
@@ -3,9 +3,13 @@
 <body>\r
 <p><strong>Key Strokes</strong></p>\r
 <p>\r
-Jalview responds a number of key strokes, and has two distinct modes of\r
-keyboard operation. The <em>F2</em> key switches between 'Normal' and\r
-<a href="features/cursorMode.html">'Cursor'</a> mode operation.\r
+Jalview has two distinct modes of keyboard operation - in 'Normal'\r
+ mode, single keystrokes (including those shown next to menu items)\r
+ provide short cuts to common commands. In <a\r
+ href="features/cursorMode.html">'Cursor'</a> mode (enabled by\r
+ <em>F2</em>), some of these are disabled and more complex 'Compound\r
+ Keystrokes' can be entered to perform precise navigation, selection\r
+ and editing operations.\r
 </p>\r
 <table border="1">\r
   <tr> \r
@@ -17,19 +21,22 @@ keyboard operation. The <em>F2</em> key switches between 'Normal' and
 <td><strong>Escape</strong></td><td>Both</td>\r
 <td>The Panic button.</td></tr>\r
 <tr> -->\r
-  <td><strong> Escape</strong></td>\r
-  <td>Normal</td>\r
-  <td>Clears the current selection region, highlighted columns and highlghted \r
-    residues. </td>\r
+  <tr> \r
+    <td><strong> Escape</strong></td>\r
+    <td>Normal</td>\r
+    <td>Clears the current selection region, highlighted columns and highlghted \r
+      residues. </td>\r
   </tr>\r
   <tr> \r
     <td><strong>Escape</strong></td>\r
     <td>Cursor</td>\r
-    As in normal mode, but also cancels any partially entered commands</td></tr>\r
+    <td>As in normal mode, but also cancels any partially entered commands</td>\r
+  </tr>\r
   <tr> \r
     <td><strong><em>F1</em></strong></td>\r
     <td>Both</td>\r
-    Show Help Documentation</td></tr>\r
+    <td>Show Help Documentation</td>\r
+  </tr>\r
   <tr> \r
     <td><strong><em>F2</em></strong></td>\r
     <td></td>\r
@@ -41,24 +48,62 @@ keyboard operation. The <em>F2</em> key switches between 'Normal' and
     <td>Undoes the last sequence edit</td>\r
   </tr>\r
   <tr> \r
+    <td><strong>Control 'Y'</strong></td>\r
+    <td>Both</td>\r
+    <td>Redo the last sequence edit undone.</td>\r
+  </tr>\r
+  <tr> \r
     <td><strong>Up Arrow</strong></td>\r
     <td>Normal</td>\r
-    Moves selected sequence(s) up the alignment</td></tr>\r
+    <td>Moves selected sequence(s) up the alignment</td>\r
+  </tr>\r
   <tr> \r
     <td><strong>Down Arrow</strong></td>\r
     <td>Normal</td>\r
-    Moves selected sequence(s) down the alignment.</td></tr>\r
-  <tr><strong>Cursor Keys<br>\r
-    (Arrow Keys)</strong></td>\r
+    <td>Moves selected sequence(s) down the alignment.</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Left Arrow</strong></td>\r
+    <td>Normal </td>\r
+    <td>Slides selected sequence(s) left. Press Alt key to slide in cursor mode</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Right Arrow</strong></td>\r
+    <td>Normal</td>\r
+    <td>Slides selected sequence(s) right. Press Alt key to slide in cursor mode</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Cursor Keys<br>\r
+      (Arrow Keys)</strong></td>\r
     <td>Cursor</td>\r
     <td>Move cursor around alignment</td>\r
   </tr>\r
   <tr> \r
+    <td><strong>Page Up</strong></td>\r
+    <td>Both</td>\r
+    <td>Scroll up the alignment view</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Page Down</strong></td>\r
+    <td>Both</td>\r
+    <td>Scroll down the alignment view</td>\r
+  </tr>\r
+  <tr> \r
     <td><strong>Control 'A'</strong></td>\r
     <td>Both</td>\r
     <td>Selects all sequences in the alignment</td>\r
   </tr>\r
   <tr> \r
+    <td><strong>Control 'I'</strong></td>\r
+    <td>Both </td>\r
+    <td>Invert sequence selection. </td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control Alt 'I'</strong></td>\r
+    <td>Both </td>\r
+    <td>Invert column selection. </td>\r
+  </tr>\r
+  <tr> \r
     <td><strong>Control 'C'</strong></td>\r
     <td>Both</td>\r
     <td>Copies the selected region into the clipboard as a Fasta format file<br> \r
@@ -67,10 +112,17 @@ keyboard operation. The <em>F2</em> key switches between 'Normal' and
   <tr> \r
     <td><strong>Control 'V'</strong></td>\r
     <td>Both</td>\r
-    Pastes the contents of the clipboard to a new alignment window. (same as the \r
-    Alignment Window menu Edit->Paste command)<br>\r
-    <em>nb. if the paste is from a Jalview alignment, any sequence and alignment \r
-    annotations will also be copied over.</em></td></tr>\r
+    <td> Paste the contents of the clipboard to the current alignment window. \r
+      (Alignment Window->Edit->Paste->Add to this Alignment)<br> <em>nb. if the \r
+      paste is from a Jalview alignment, any sequence and alignment annotations \r
+      will also be copied over.</em></td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control Shift 'V'</strong></td>\r
+    <td>Both</td>\r
+    <td>Paste the contents of the clipboard to a new alignment window. (Alignment \r
+      Window->Edit->Paste->To New Alignment)</td>\r
+  </tr>\r
   <tr> \r
     <td><strong>Control 'X'</strong></td>\r
     <td>Both</td>\r
@@ -100,6 +152,66 @@ columns are selected, you should use the <a href="features/regionHiding.html">Hi
     <td>Both</td>\r
     <td>Hides / Reveals selected sequences</td>\r
   </tr>\r
+  <tr> \r
+    <td><strong>Control 'O'</strong></td>\r
+    <td>Both</td>\r
+    <td>Input new alignment from file</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control 'S'</strong></td>\r
+    <td>Both</td>\r
+    <td>Save alignment with current filename and format</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control Shift 'S'</strong></td>\r
+    <td>Both</td>\r
+    <td>Save alignment as a new file or with a different format</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control 'P'</strong></td>\r
+    <td>Both</td>\r
+    <td>Opens the print dialog box to print the current view</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control 'W'</strong></td>\r
+    <td>Both</td>\r
+    <td>Closes the current view or the current alignment</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Backspace</strong></td>\r
+    <td>Normal</td>\r
+    <td>Delete the currently selected rows or columns from the alignment.</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control 'L'</strong></td>\r
+    <td>Left</td>\r
+    <td>Remove columns to left of left-most column marker.</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control 'R'</strong></td>\r
+    <td>Both</td>\r
+    <td>Remove columns to right of right-most column marker.</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control 'E'</strong></td>\r
+    <td>Both</td>\r
+    <td>Remove gapped columns</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control Shift 'E'</strong></td>\r
+    <td>Both</td>\r
+    <td>Remove all gaps</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong>Control 'D'</strong></td>\r
+    <td>Both</td>\r
+    <td>Open the 'Remove redundancy' Dialog box.</td>\r
+  </tr>\r
+  <tr> \r
+    <td><strong></strong></td>\r
+    <td>Normal</td>\r
+    <td></td>\r
+  </tr>\r
 </table>\r
 <p>The compound commands available in the Cursor mode are summarised\r
 below. Single letter commands can be prefixed by digits to specify a repetition\r