Phylogeny VIZBI 2011
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Slides from talk for VizBi 2011 http://vizbi.org/
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Phylogeny VIZBI 2011
- 2. TreeView
- 3. PHYLIP NJPLOT MacClade PAUP
- 6. Mature
- 7. Problem has been solved
- 8. Thank you
- 10. Trees suck…
- 11. …in ways that maps don’t
- 20. Ground truth
- 25. Relative and absolute navigation
- 28. Phylogeny has none of this
- 29. A B Y C D X
- 30. B A Y D C X We can reorder Y
- 31. @broadinstitute
- 32. B A Y D C X X is a partial order
- 33. B A Y D C X X is a partial order
- 34. B A Y D C X: evolutionary distance
- 35. B A Y D C X: time
- 36. Y Z? X What would third dimension represent?
- 37. Paloverde
- 38. @wellcometrust
- 40. Pretty, but…
- 41. Is 3D useful?
- 42. @systbiol
- 43. Y: evolutionary distance Z: genes/copies X: species
- 45. @DavKidd @andrewxhill Y: latitude Z: evolutionary distance X:longitude
- 46. @rdmpage
- 47. @andrewxhill
- 49. @dr_pi
- 50. @kzelnio Think how great of a tool that could be at museums on a large flat screen at 4 year old height.
- 53. Dendroscope
- 55. Big trees
- 56. 11 June 2003
- 57. “best viewed when enlarged to a 1.5-meter diameter”
- 58. add
- 61. @rdmpage
- 62. @rdmpage
- 63. 1 2 3
- 64. 1 4 2 5 3
- 65. What’s next… Geophylogenies Touch Zoomable viewers http://iphylo.blogspot.com
Notas do Editor
- http://taxonomy.zoology.gla.ac.uk/rod/treeview.html
- http://evolution.genetics.washington.edu/phylip/software.html#Plotting and “A reference guide for tree analysis and visualization” http://dx.doi.org/10.1186/1756-0381-3-1
- http://loco.biosci.arizona.edu/paloverde/paloverde.html
- http://www.wellcometreeoflife.org/
- “Visualising very large phylogenetic trees in three dimensional hyperbolic space” http://dx.doi.org/10.1186/1471-2105-5-48
- June 2007 issue of Systematic Biology, a homage to Wayne Maddison, SystBiol (1997) 46 (3): 523-536. doi: 10.1093/sysbio/46.3.523
- Three-Dimensional Phylogeny Explorer: Distinguishing paralogs, lateral transfer, and violation of "molecular clock" assumption with 3D visualization NamshinKim and ChristopherLeehttp://dx.doi.org/10.1186/1471-2105-8-213
- http://iphylo.blogspot.com/2007/06/earth-not-flat-official.html
- http://systbio.org/?q=node/184, see http://dx.doi.org/10.1080/10635150701266848
- Petra Isenberg, see “Interactive tree comparison for co-located collaborative information visualization” http://www.ncbi.nlm.nih.gov/pubmed/17968069 and http://innovis.cpsc.ucalgary.ca/Research/CollaborativeTreeComparison
- http://www.perceptivepixel.com/ and http://iphylo.blogspot.com/2008/08/perceptive-pixel-taxonomy-demo.html
- http://www.senchatouch.com/
- http://www-ab.informatik.uni-tuebingen.de/software/dendroscope
- Image from Mike Sanderson’s Lab (http://loco.biosci.arizona.edu/)
- http://msdn.microsoft.com/en-us/library/cc645050(v=vs.95).aspx
- http://iphylo.blogspot.com/2007/08/visualising-very-big-trees-part-iv.html