!
#Phinch: An interactive, exploratory data
visualization framework for environmental
sequence data
@hollybik
University o...
VERY DIFFICULT
Bik et al. 2012, Trends in Ecology and Evolution
“A Research-Driven Data Visualization
Framework for High-Throughput
Environmental Sequence Data”
http://pitchinteractive.com @pitchinc
“Pitch Interactive dissects large data sets
in search of meaningful and often hidden
patterns that serve to determine the ...
Goal: A web-based, scalable visualization framework for
standard data formats
•  BIOM (json) files – OTU tables, metagenome datasets
•  Tab-delimited metadata files
http://phinch.org
http://phinch.org
http://phinch.org
“Export” and “Share” features
Nitrate Levels (ppm)
Relativeabundance(%)
Tenacibaculum spp.
Sabreen Aulakh, Eisen lab undergrad
Future Work
• Explore phylogenetic visualizations (e.g. probability
distributions from tree placement of short reads)
• Ex...
NSF Research
Coordination Network
RCN EukHiTS
http://eukhits.wordpress.com
Acknowledgements
:
:
Jonathan Eisen Aaron Darling Guillaume Jospin Dongying Wu 
 David Coil
:
: Further Information

•  hb...
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"
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JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"

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JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence data"

  1. 1. ! #Phinch: An interactive, exploratory data visualization framework for environmental sequence data @hollybik University of California, Davis (now) University of Birmingham, UK (soon)
  2. 2. VERY DIFFICULT Bik et al. 2012, Trends in Ecology and Evolution
  3. 3. “A Research-Driven Data Visualization Framework for High-Throughput Environmental Sequence Data”
  4. 4. http://pitchinteractive.com @pitchinc
  5. 5. “Pitch Interactive dissects large data sets in search of meaningful and often hidden patterns that serve to determine the shape and form that best tells a story.”
  6. 6. Goal: A web-based, scalable visualization framework for standard data formats
  7. 7. •  BIOM (json) files – OTU tables, metagenome datasets •  Tab-delimited metadata files
  8. 8. http://phinch.org
  9. 9. http://phinch.org
  10. 10. http://phinch.org “Export” and “Share” features
  11. 11. Nitrate Levels (ppm) Relativeabundance(%) Tenacibaculum spp. Sabreen Aulakh, Eisen lab undergrad
  12. 12. Future Work • Explore phylogenetic visualizations (e.g. probability distributions from tree placement of short reads) • Expand visualization framework to include statistical analyses, plugin tools, public API • Self-sustaining, open source user/developer community
  13. 13. NSF Research Coordination Network RCN EukHiTS http://eukhits.wordpress.com
  14. 14. Acknowledgements : : Jonathan Eisen Aaron Darling Guillaume Jospin Dongying Wu David Coil : : Further Information •  hbik@ucdavis.edu •  @Dr_Bik – updates posted to Twitter Wesley Grubbs, Shujian Bu (Pitch Interactive) Acknowledgements
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