Newick Format

NEWICK is a simple format used to write out trees in a text file.  While this is a hard-to-read format for humans, it is very useful for exchanging trees between different types of software. An example of the contents of a NEWICK format tree file is given below (note that semi-colon is needed to end the tree).  Further information on this format can be found at Joe Felsenstein’s website!Inet("http://evolution.genetics.washington.edu/phylip/felsenstein.html").

((raccoon, bear),((sea_lion,seal),((monkey,cat), weasel)),dog);

The above tree with branch A branch is a line connecting either two internal nodes to each other or an external node to an internal node in a phylogenetic tree. The length of a branch denotes the genetic distance (e.g., number of substitutions per unit time) between the two taxa it connects. lengths will look as follows:

((raccoon:19.19959,bear:6.80041):0.84600,((sea_lion:11.99700, seal:12.00300):7.52973,((monkey:100.85930,cat:47.14069):20.59201, weasel:18.87953):2.09460):3.87382,dog:25.46154);

If you wish to specify bootstrap values then they could appear before the branch A branch is a line connecting either two internal nodes to each other or an external node to an internal node in a phylogenetic tree. The length of a branch denotes the genetic distance (e.g., number of substitutions per unit time) between the two taxa it connects. lengths (e.g., in .dnd files produced by CLUSTAL) or after the branch A branch is a line connecting either two internal nodes to each other or an external node to an internal node in a phylogenetic tree. The length of a branch denotes the genetic distance (e.g., number of substitutions per unit time) between the two taxa it connects. lengths (e.g., in .PHB files produced by CLUSTAL).  In these cases, the format might look like:

((raccoon:19.19959,bear:6.80041)50:0.84600,((sea_lion:11.99700, seal:12.00300)100:7.52973,((monkey:100.85930,cat:47.14069)80:20.59201, weasel:18.87953)75:2.09460)50:3.87382,dog:25.46154);

or

((raccoon:19.19959,bear:6.80041):0.84600[50],((sea_lion:11.99700, seal:12.00300):7.52973[100],((monkey:100.85930,cat:47.14069):20.59201[80], weasel:18.87953):2.09460[75]):3.87382[50],dog:25.46154);