Template:Clade/doc

This template is used for illustrating branching trees with the nodes and base labels being clickable links. They are especially suited to represent evolutionary trees.

Usage
produces

produces

produces

produces

To replace the solid line with a dashed line, use |stateN=dashed:

produces

Tips
An easy way of creating larger cladograms is to use the Newick format and proceed to edit it using a suitable text editor to produce the markup.


 * 1) Start with Newick format ((a,b),(c,d))
 * 2) Replace "(" with ""
 * 3) Edit to replace commas with pipes and numbers
 * 4) Edit clade labels if needed

Example Perl script to automate the conversion: use constant N=>"\n"; use constant T=>"\t";

my $tree='((a,b),(c,d));'; # get sequence $tree=~s/[\n\r]//g; # loose those spaces $tree=~ s/\:[\.\d]+//g; # loose those lengths while ($tree=~ m/\(/) { foreach my $clade ($tree=~ m/\(([^\(\)]+)\)/g) { my @branches=split /\,/,$clade; s/(\t+)/$1\t/g for @branches; die 'ERROR: degenerate/empty node!'.N if $#branches<1; $tree=~ s/\(\Q$clade\E\)/${\join(,)}/; # substitute } pos($tree)=0; } $tree=~s/(\t*)\t\}\}/$1\}\}/g; # lazy fix

print $tree;

Using a box
You can nest the templates and use links around the text. You may use non-breaking spaces (&amp;nbsp;) to obtain spaces or to have labels that have spaces.

The entire cladogram can be placed in a box so that text flows nicely around it.