X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2Fchimera.html;h=68ac4652fbb80e0ba7aeb611ec0ec42e0161a224;hb=ab222dff0212dbe29d7c958a365963c41dc16d38;hp=cbef2c1616eaa806888f03702b0bae4b3f6a9710;hpb=936ac942e96e2767e1b1fff46e805e8a1e5be1c7;p=jalview.git
diff --git a/help/html/features/chimera.html b/help/html/features/chimera.html
index cbef2c1..68ac465 100644
--- a/help/html/features/chimera.html
+++ b/help/html/features/chimera.html
@@ -73,7 +73,10 @@
When a selection is highlighted in a Jalview window, use the
Select→Select Highlighted Region or press B
to add the mapped positions to the alignment window's column
- selection.
+ selection.
Hint: Use your machine's 'switch
+ application' key combination (Alt-Tab on Windows and Linux,
+ Cmd-Tab on OSX) to quickly switch between UCSF Chimera and Jalview
+ before pressing 'B' to select highlighted regions.
Basic screen operations (see
+ trace.
-
-
+
+
+ These are only available if the Tools→Enable
+ Experimental Features option is enabled. (Since Jalview 2.10.2)
+
+
Selecting
+ this option will create new residue attributes for any
+ features currently visible in the associated alignment
+ views, allowing those positions to be selected and
+ analysed with via Chimera's 'Render by Attribute' tool
+ (found in the Tools submenu called Structure Analysis).
+
If you use this option, please remember to select
+ the Refresh Menus option in Chimera's Render by
+ Attribute dialog box in order to see the attributes
+ derived from Jalview sequence features.
+
+ View
+ this function's issue in Jalview's bug tracker
This
+ submenu lists available Chimera residue attributes that
+ can be imported as Jalview features on associated
+ sequences.
This is particularly useful for
+ transferring quantitative positional annotation. For
+ example, structure similarity for an alignment can be
+ visualised by transferring the local RMSD attributes
+ generated by Chimera's Match->Align tool onto aligned
+ sequences and displayed with a Graduated feature colour
+ scheme.
+ View
+ this function's issue in Jalview's bug tracker