<mapID target="seqfetch" url="html/features/seqfetch.html"/>
<mapID target="seqfeatures" url="html/features/seqfeatures.html"/>
<mapID target="seqfeatedit" url="html/features/editingFeatures.html"/>
+ <mapID target="seqfeatcreat" url="html/features/creatinFeatures.html"/>
<mapID target="seqfeatures.settings" url="html/features/featuresettings.html"/>
<mapID target="viewingpdbs" url="html/features/viewingpdbs.html"/>
<mapID target="preferences" url="html/features/preferences.html"/>
<tocitem text="What's new" target="new" expand="true">
<tocitem text="Multiple Views" target="multipleviews"/>
<tocitem text="Reload and Save" target="reloadsave"/>
- <tocitem text="Editing Sequence Features" target="seqfeatedit"/>
+ <tocitem text="Creating Sequence Features" target="seqfeatcreat"/>
+ <tocitem text="Amending or Deleting Sequence Features" target="seqfeatedit"/>
</tocitem>
<tocitem text="Release History" target="release"/>
<tocitem text="Editing Alignments" target ="edit"/>
--- /dev/null
+<html>\r
+<head>\r
+<title>Creating Sequence Features</title>\r
+</head>\r
+<body>\r
+<strong>Creating Sequence Features</strong>\r
+<p>Jalview can create sequence features from the matches of a <a\r
+ href="search.html">regular expression search</a>, or from the currently\r
+selected area via the <strong>"selection→Create\r
+sequence feature"</strong> entry in the selection area popup menu. In both\r
+cases, the <strong>Create Features</strong> dialog box will then be\r
+opened:</p>\r
+<img src="crnewfeature.gif">\r
+<p>Select or enter the attributes for the features being created,\r
+and then press OK to create the new features.</p>\r
+<p>Each attribute is described below:\r
+<ul>\r
+ <li><strong>Sequence Feature Name</strong>\r
+ <p>Either give the new features a new name or use the menu to\r
+ re-use an existing feature name.</p>\r
+ </li>\r
+ <li><strong>Feature group</strong>\r
+ <p>Enter a new group name, or re-use an existing group from the\r
+ pull-down menu.</p>\r
+ </li>\r
+ <li><strong>Feature Colour</strong>\r
+ <p>Keep the existing colour for this feature's name and group, or\r
+ select the colour box to open a colour chooser to pick a different one.</p>\r
+ </li>\r
+ <li><strong>Description</strong>\r
+ <p>Enter a description for all the features being created. Each\r
+ feature defined on a sequence may have its own description that will be\r
+ displayed in the tooltip for the feature in that region.</p>\r
+ </li>\r
+</ul>\r
+</p><p><em>Sequence Feature Creation was introduced in Jalview Version 2.2</em></p>\r
+</body>\r
+</html>
\ No newline at end of file
<html>\r
<head>\r
-<title>Creating and Editing Sequence Features</title>\r
+<title>Amending or Deleting Sequence Features</title>\r
</head>\r
<body>\r
-<strong>Creating and Editing Sequence Features</strong>\r
-<p>Double clicking on a sequence feature opens the <strong>"Amend/Delete Features"</strong> dialog box.\r
-<img src="">\r
-</p>\r
-<!-- update the features.html - link this bit in -->\r
+<strong>Amending or Deleting Sequence Features</strong>\r
+<p>Double clicking a position in the alignment with one or more\r
+displayed sequence features opens the <strong>"Amend/Delete\r
+Features"</strong> dialog box.</p>\r
+<p><img src="amendfeature.gif"></p>\r
+<p>The dialog box only allows one of the features at the\r
+double-clicked position to be edited or deleted at a time, and it will\r
+also be highlighted in black in the alignment window.</p>\r
+<p>Choose which feature is to be modified by selecting it from the <strong>Sequence\r
+Feature Name</strong> <!-- and <strong>Feature Group</strong> --> pull down\r
+menu. In addition to the Name, group, colour and description attributes\r
+described for the <a href="creatinFeatures.html">new feature dialog\r
+box</a>, a feature's start and end position can be changed either by\r
+entering a new position directly or by using the adjacent up and down\r
+buttons.</p>\r
+<p>Select <strong>Amend</strong> to update the feature, <strong>Delete</strong>\r
+to remove the selected feature, or <strong>Cancel</strong> to leave the\r
+feature unchanged.</p>\r
<p><em>Sequence feature editing was implemented in Jalview 2.2</em></p>\r
</body>\r
-</html>
\ No newline at end of file
+</html>\r
git://source.jalview.org / jalview.git / commitdiff
