X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=help%2Fhtml%2Ffeatures%2Ffeatureschemes.html;h=37243d2ed58626adc2345d29d41799527a16bc3e;hb=4e60a6952c6b85e10335b3feb5fef6c81bba79a4;hp=215e2832b2f51fd4a7f1142414ef97059f7e4b41;hpb=797df64fa2a0a30773d0f48f5494d4155e5a8be3;p=jalview.git
diff --git a/help/html/features/featureschemes.html b/help/html/features/featureschemes.html
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@@ -1,73 +1,106 @@
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see
Sequence feature colour schemes
-Jalview can visualize annotation present on parts of a sequence by -overlaying colours according to the annotation present at each position. -It allows features to be colored either according to type, or for a -particular type, according to an individual feature's associated label -or score. The Feature Settings dialog -box controls the order and display of each sequence annotation type, and -also allows the colour scheme used for the the feature to be changed via -the 'Graduated Colour' option in the sequence feature pop-up menu -(obtained by right-clicking on a sequence feature).
++ Sequence feature colour schemes +
++ Jalview can visualize annotation present on parts of a sequence by + overlaying colours according to the annotation present at each + position. It allows features to be colored either according to type, + or for a particular type, according to an individual feature's + associated label or score. The Feature + Settings dialog box controls the order and display of each + sequence annotation type, and also allows the colour scheme used for + the the feature to be changed via the 'Graduated Colour' + option in the sequence feature pop-up menu (obtained by + right-clicking on a sequence feature). +
-The Graduated Feature Colour dialog box has the following -controls: -
Icon styles for graduated feature styles
-
When a graduated colourscheme is applied to a feature, it is indicated in the feature settings or amend feature dialog box by the following types of icon:
-
Type of Colouring | Icon |
Graduated colour by Feature Score | ![]() |
Graduated colour thresholded (less than) by feature Score | ![]() |
Graduated colour thresholded (greater than) by feature Score | ![]() |
Colour by Feature Label (may also be thresholded) | ![]() |
- - The current threshold is given in the - icon's tooltip. - - |
The Graduated Feature Colour dialog box has the following + controls: +
+ Icon styles for graduated feature styles
+
+ When a graduated colourscheme is applied to a feature, it is
+ indicated in the feature settings or amend feature dialog box by the
+ following types of icon:
+
Type of Colouring | +Icon | +
Graduated colour by Feature Score | +![]() |
+
Graduated colour thresholded (less than) by + feature Score | +![]() |
+
Graduated colour thresholded (greater than) by + feature Score | +![]() |
+
Colour by Feature Label (may also be + thresholded) | +![]() |
+
The + current threshold is given in the icon's tooltip. + | +