</p>
<p>
<strong><em>Selecting Sequence Leaf Nodes</em></strong><br>
- Selecting sequence ids at the leaves of the tree selects the
+ Selecting sequence IDs at the leaves of the tree selects the
corresponding sequences in the original alignment. These selections
are also reflected in any other analysis windows associated with the
alignment, such as another tree viewer.
</p>
<p>
- <strong><em>Grouping sequences by partitioning the
- tree at a particular distanec</em></strong><br> Clicking anywhere along
+ <strong><em><a name="partitioning">Grouping sequences by partitioning</a> the
+ tree at a particular distance</em></strong><br> Clicking anywhere along
the extent of the tree (but not on a leaf or internal node) defines
a tree 'partition', by cutting every branch of the tree spanning the
depth where the mouse-click occurred. Groups are created containing
sequences at the leaves of each connected sub tree. These groups are
each given a different colour, which are reflected in other windows
- in the same way as if the sequence ids were selected, and can be
+ in the same way as if the sequence IDs were selected, and can be
edited in the same way as user defined sequence groups.
</p>
<p>
identifying specific patterns of conservation and mutation
corresponding to the overall phylogenetic structure, when combined
with the <a href="../colourSchemes/conservation.html">conservation
- based colour scheme</a>.
+ based colour scheme</a>.To distinguish parts of the alignment assigned
+ to different groups, you may also enable the Sequence ID colour
+ scheme via the <a href="../menus/alwcolour.html">Alignment
+ window's Colours menu</a> (<em>Since 2.11</em>).
</p>
<p>
<strong><em>Selecting Subtrees and changing the branch
git://source.jalview.org / jalview.git / blobdiff