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HFV Ebola sequence database
 

Rainbow Tree

Purpose: To create a color-coded phylogenetic tree. See details below.

Input tree
Paste your tree file
in Newick format
icon


[Sample Input]
Or upload Newick tree file

Options
Color tree according to
icon
first character(s) in sequence names
the column in field of sequence names delimited by
paste or upload grouped sequence names (example) icon

Assign colors default icon user-specified
Specify outgroup icon

Advanced options
Tree title
Branch thickness
Tip labels

no label
color categories
full sequence names

symbols icon by first character(s) in sequence names
the column in field of sequence names delimited by
paste or upload grouped sequence names for symbol tips (example)

 Label style (in radial tree):
axial horizontal

Legend  Style:
vertical horizontal no legend     put legend in a separate page

 Show legend at:
top left top top right
left center right
bottom left bottom bottom right
Color interior edges icon
Show node labels icon
E-mail Always email results

Details: This tool groups sequences based on sequence names, and draws a color-coded tree using up to 20 colors. It is useful when you already have a tree and want to color its branches to depict particular groupings of sequences. For example, the Sample Input with default settings depicts the HIV-1 M-group reference phylogeny color-coded by subtype.

For more information, see Rainbow Tree Explanation.

References: This tool was developed by Peter Hraber and Hyejin Yoon, using APE in R, as described in:




Questions or comments? Contact us at hfv-info@lanl.gov