This is an example of using phylotree.js settings to create a tree which is suitable for a static display: no clickable nodes, nothing is selectable, fixed sizes in both dimensions.
The Newick string is loaded from a file using an asynchronous d3.text call.
| <!DOCTYPE html> | |
| <html lang = 'en'> | |
| <head> | |
| <meta charset="utf-8"> | |
| <link rel="stylesheet" href="//netdna.bootstrapcdn.com/bootstrap/3.3.5/css/bootstrap.min.css"> | |
| <link rel="stylesheet" href="//netdna.bootstrapcdn.com/bootstrap/3.3.5/css/bootstrap-theme.min.css"> | |
| <link href="//veg.github.io/phylotree.js/phylotree.css" rel="stylesheet"> | |
| <script src="//code.jquery.com/jquery.js"></script> | |
| <script src="//netdna.bootstrapcdn.com/bootstrap/3.3.5/js/bootstrap.min.js"></script> | |
| <script src="//d3js.org/d3.v3.min.js"></script> | |
| <script src="//veg.github.io/phylotree.js/phylotree.js"></script> | |
| </head> | |
| <body> | |
| <svg id = "tree_display"></svg> | |
| <script> | |
| d3.text ("yokoyama.nwk", function (error, newick) { | |
| var height = 400, | |
| width = 400, | |
| tree = d3.layout.phylotree() | |
| .svg (d3.select ("#tree_display")) | |
| .options ( | |
| {'left-right-spacing' : 'fit-to-size', | |
| // fit to given size top-to-bottom | |
| 'top-bottom-spacing' : 'fit-to-size', | |
| // fit to given size left-to-right | |
| 'selectable' : false, | |
| // make nodes and branches not selectable | |
| 'collapsible' : false, | |
| // turn off the menu on internal nodes | |
| 'transitions' : false | |
| // turn off d3 animations | |
| } | |
| ) | |
| .size([height, width]) | |
| .node_circle_size (0); // do not show "circles" at internal nodes | |
| tree (d3.layout.newick_parser (newick)) | |
| // parse the Newick into a d3 hierarchy object with additional fields | |
| // generate node coordinates | |
| .layout(); | |
| // render the tree | |
| }); | |
| </script> | |
| </body> | |
| </html> |
| (((EELA:0.150276,CONGERA:0.213019):0.230956,(EELB:0.263487,CONGERB:0.202633):0.246917):0.094785,((CAVEFISH:0.451027,(GOLDFISH:0.340495,ZEBRAFISH:0.390163):0.220565):0.067778,((((((NSAM:0.008113,NARG:0.014065):0.052991,SPUN:0.061003,(SMIC:0.027806,SDIA:0.015298,SXAN:0.046873):0.046977):0.009822,(NAUR:0.081298,(SSPI:0.023876,STIE:0.013652):0.058179):0.091775):0.073346,(MVIO:0.012271,MBER:0.039798):0.178835):0.147992,((BFNKILLIFISH:0.317455,(ONIL:0.029217,XCAU:0.084388):0.201166):0.055908,THORNYHEAD:0.252481):0.061905):0.157214,LAMPFISH:0.717196,((SCABBARDA:0.189684,SCABBARDB:0.362015):0.282263,((VIPERFISH:0.318217,BLACKDRAGON:0.109912):0.123642,LOOSEJAW:0.3971):0.287152):0.140663):0.206729):0.222485,(COELACANTH:0.558103,((CLAWEDFROG:0.441842,SALAMANDER:0.299607):0.135307,((CHAMELEON:0.771665,((PIGEON:0.150909,CHICKEN:0.172733):0.082163,ZEBRAFINCH:0.099172):0.272338):0.014055,((BOVINE:0.167569,DOLPHIN:0.15745):0.104783,ELEPHANT:0.166557):0.367205):0.050892):0.114731):0.295021) |
