Creating Sequence Features

From: jprocter Date: Sun, 26 Nov 2006 19:21:44 +0000 (+0000) Subject: 2.2 documentation X-Git-Tag: Release_2_2~33 X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;ds=sidebyside;h=2cb55fd4640f96140576954dcebaec4a6b71f891;p=jalview.git 2.2 documentation --- diff --git a/help/help.jhm b/help/help.jhm index 2e10dbf..729cff4 100755 --- a/help/help.jhm +++ b/help/help.jhm @@ -18,6 +18,7 @@ + diff --git a/help/helpTOC.xml b/help/helpTOC.xml index c91faff..6152307 100755 --- a/help/helpTOC.xml +++ b/help/helpTOC.xml @@ -5,7 +5,8 @@ - + + diff --git a/help/html/features/amendfeature.gif b/help/html/features/amendfeature.gif new file mode 100644 index 0000000..39cc53a Binary files /dev/null and b/help/html/features/amendfeature.gif differ diff --git a/help/html/features/creatinFeatures.html b/help/html/features/creatinFeatures.html new file mode 100644 index 0000000..04e5fdc --- /dev/null +++ b/help/html/features/creatinFeatures.html @@ -0,0 +1,38 @@ + + +Creating Sequence Features + + +Creating Sequence Features +

Jalview can create sequence features from the matches of a regular expression search, or from the currently +selected area via the "selection→Create +sequence feature" entry in the selection area popup menu. In both +cases, the Create Features dialog box will then be +opened:

Select or enter the attributes for the features being created, +and then press OK to create the new features.

Each attribute is described below: +

Sequence Feature Name +
Either give the new features a new name or use the menu to + re-use an existing feature name.
+
Feature group +
Enter a new group name, or re-use an existing group from the + pull-down menu.
+
Feature Colour +
Keep the existing colour for this feature's name and group, or + select the colour box to open a colour chooser to pick a different one.
+
Description +
Enter a description for all the features being created. Each + feature defined on a sequence may have its own description that will be + displayed in the tooltip for the feature in that region.
+

Sequence Feature Creation was introduced in Jalview Version 2.2

+ + \ No newline at end of file diff --git a/help/html/features/crnewfeature.gif b/help/html/features/crnewfeature.gif new file mode 100644 index 0000000..5aa6edb Binary files /dev/null and b/help/html/features/crnewfeature.gif differ diff --git a/help/html/features/editingFeatures.html b/help/html/features/editingFeatures.html index c30c55f..e8fd6f5 100644 --- a/help/html/features/editingFeatures.html +++ b/help/html/features/editingFeatures.html @@ -1,13 +1,26 @@ -Creating and Editing Sequence Features +Amending or Deleting Sequence Features -Creating and Editing Sequence Features -

Double clicking on a sequence feature opens the "Amend/Delete Features" dialog box. - -

- +Amending or Deleting Sequence Features +

Double clicking a position in the alignment with one or more +displayed sequence features opens the "Amend/Delete +Features" dialog box.

The dialog box only allows one of the features at the +double-clicked position to be edited or deleted at a time, and it will +also be highlighted in black in the alignment window.

Choose which feature is to be modified by selecting it from the Sequence +Feature Name pull down +menu. In addition to the Name, group, colour and description attributes +described for the new feature dialog +box, a feature's start and end position can be changed either by +entering a new position directly or by using the adjacent up and down +buttons.

Select Amend to update the feature, Delete +to remove the selected feature, or Cancel to leave the +feature unchanged.

Sequence feature editing was implemented in Jalview 2.2

- \ No newline at end of file +