JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence...
Transcript of JASM2014 talk - "Phinch: An interactive, exploratory data visualization for enviornmental sequence...
!
#Phinch: An interactive, exploratory data visualization framework for environmental
sequence data
@hollybik University of California, Davis (now) University of Birmingham, UK (soon)
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 shape
and form that best tells a story.”
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
Nitrate Levels (ppm)
Rela
tive
abun
danc
e (%
)
Tenacibaculum spp.
Sabreen Aulakh, Eisen lab undergrad
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
NSF Research Coordination Network
RCN EukHiTShttp://eukhits.wordpress.com
Acknowledgements :
:
Jonathan Eisen Aaron Darling Guillaume Jospin Dongying Wu David Coil :
: Further Information
• @Dr_Bik – updates posted to Twitter
• Grant proposal now posted on Figshare!
!!!:
Wesley Grubbs, Shujian Bu (Pitch Interactive)
Acknowledgements