X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=help%2Fhtml%2Fmenus%2Falwannotations.html;h=3a1afc304165bc4ab61ad60b85a13a84611f95a1;hb=1b9fc500a75a38d7c4408d4b209384d5236911cc;hp=89a8286ce67b1c6dbf779ea0b9e1b8f2d48ad068;hpb=153dd62dc91da13ae732600e6ea55ddbe15eab39;p=jalview.git
diff --git a/help/html/menus/alwannotations.html b/help/html/menus/alwannotations.html
index 89a8286..3a1afc3 100755
--- a/help/html/menus/alwannotations.html
+++ b/help/html/menus/alwannotations.html
@@ -1,20 +1,21 @@
Annotation Panel Menus
@@ -46,12 +47,26 @@
This is useful to export alignment quality measurements for further analysis.
- The following additional entries are avalable when the popup menu is opened on a consensus sequence annotation row:
+ The following additional entries are available when the popup menu is opened on a consensus sequence annotation row:
+
- Ignore Gaps in Consensus
If this checkbox is selected, all consensus calculations performed in
the current Alignment window will be done without counting gaps as a consensus
character.
+ - Show Consensus Histogram
+ Enable or disable the display of the histogram above the consensus sequence.
+
+ -
+ Show Consensus Logo
+ Enable or disable the display of the sequence logo above the consensus sequence.
+
+ - Normalise Consensus Logo
+ When enabled, scales all logo stacks to the same height,
+ making it easier to compare symbol diversity in highly variable
+ regions.
+
+ -
- Copy Consensus Sequence
Copies the consensus sequence to the clipboard in Fasta format, to allow
the consensus sequence to be added to an alignment. Note the copied sequence