X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2Ffeatures%2Fannotation.html;fp=help%2Fhelp%2Fhtml%2Ffeatures%2Fannotation.html;h=76b23eb2bde776089b05df6c1843f1111accb9a6;hb=469dc5a0e6d06a2c8a27f27b712ccfdbe3314ee4;hp=b63d20bcc86d42cb7642405485ec97d674eba959;hpb=f32142e854e6eadb5c85c4379d596369bd7098c5;p=jalview.git diff --git a/help/help/html/features/annotation.html b/help/help/html/features/annotation.html index b63d20b..76b23eb 100755 --- a/help/help/html/features/annotation.html +++ b/help/help/html/features/annotation.html @@ -29,7 +29,7 @@
In addition to the definition of groups and sequence features, - Jalview can display symbols and graphs under the columns of an + Jalview can display symbols, line graphs, histograms and heatmaps under the columns of an alignment. These annotation tracks are displayed in the annotation area below the alignment. The annotation area's visibility is controlled with the View→Show Annotation @@ -40,15 +40,14 @@
+ Adjusting the height of histograms, line graphs and heatmaps
The height of line graphs, bar charts and predicted alignment error (PAE) matrix heatmaps can be adjusted simply by click-dragging them up or down to increase or decrease the height. Hold down SHIFT to adjust the height of all instances of a particular type of annotation row.
Sequence Highlighting and Selection from Annotation
@@ -101,6 +102,15 @@ (Mac CMD) double-click will toggle inclusion of associated sequences in the selection.
+ Selecting, analysing and exploring heatmap annotation +
Mouseovers on heap annotation tracks result in a tooltip displaying information about the range of values under the mouse, and their associated row and column in the heatmap.
For Predicted Alignment Error (PAE) matrices, the only form of heatmap annotation currently supported by Jalview, both the vertical and horizontal positions in the heatmap correspond to positions in linked 3D structures and the associated sequence in the alignment - so clicking any position in a heatmap will select columns in the alignment corresponding to the selected row(s) and column under the mouse.
+
Interactive Alignment Annotation
@@ -144,6 +154,13 @@
in 2.5)
Selecting this toggles whether column
labels will be shrunk to fit within each column, or displayed
using the view's standard font size.
Editing labels and secondary structure annotation