Quick Introduction to Cytoscape for Undergraduates
「数字を見せろ」から「コードを見せろ」へ 〜過程の透明性を確保したデータ可視化を目指す〜
1. 「数字を見せろ」から
「コードを見せろ」へ
Show me your code, in addition to the numbers!
Keiichiro Ono (Twitter: @c_z)
UC, San Diego
Department of Medicine
過程の透明性を確保したデータ可視化を目指す
4. Keiichiro Ono
Background
Bioinformatics
Computer Science
Work
Research
Bioinformatics workflow
Visualization pipeline
Data
Visualization
Networks
Other Biological Data
Integration
Molecular Interactions
Pathways
Annotations
Software Development
Cytoscape
NeXO
Cyberinfrastructure
All kinds of small tools
Like
Art
Kandinsky
Mondrian
Music
Electronica
Techno
Minimal
Detroit
Jazz
Sci-fi
Movie
Novel
Life
US
San Diego
San Francisco Bay Area
Los Angeles
Orange County
Japan
Gifu
Tokyo
7. Keiichiro Ono
Background
Bioinformatics
Computer Science
Work
Research
Bioinformatics workflow
Visualization pipeline
Data
Visualization
Networks
Other Biological Data
Integration
Molecular Interactions
Pathways
Annotations
Software Development
Cytoscape
NeXO
Cyberinfrastructure
All kinds of small tools
Like
Art
Kandinsky
Mondrian
Music
Electronica
Techno
Minimal
Detroit
Jazz
Sci-fi
Movie
Novel
Life
US
San Diego
San Francisco Bay Area
Los Angeles
Orange County
Japan
Gifu
Tokyo
69. –Katy Börner
“Decision making in science, industry, and politics,
as well as in daily life, requires that we make sense
of data sets representing the structure and
dynamics of complex systems. Analysis, navigation,
and management of these continuously evolving
data sets require a new kind of data-analysis and
visualization tool we call a macroscope”
Communications of the ACM, Vol. 54 No. 3, Pages 60-69 10.1145/1897852.1897871
70. –Katy Börner
“Decision making in science, industry, and politics,
as well as in daily life, requires that we make sense
of data sets representing the structure and
dynamics of complex systems. Analysis, navigation,
and management of these continuously evolving
data sets require a new kind of data-analysis and
visualization tool we call a macroscope”
Communications of the ACM, Vol. 54 No. 3, Pages 60-69 10.1145/1897852.1897871
科学や産業、政治、更には日常生活における意思決定でも、複雑なシステムの構造やダイナミ
クスを表すデータセットを理解する必要がある。このような絶え間なく発展するデータセット
を解析、ナビゲーション、そして管理するためには、我々が「マクロスコープ」と呼ぶ新たな
可視化と解析のためのツールが必要である。
77. –Tamara Munzner
Visualization is suitable when there is a
need to augment human capabilities
rather than replace people with
computational decision-making methods.
Visualization Analysis and Design. A K Peters/CRC Press, 10/2014.
可視化の利用は、(機械学習などの)計算機的手法で人を置き換える場合ではなく、
ヒトの能力を拡張して意思決定を行う必要がある時にこそ適切である。
127. What is Docker?
- Container to run applications in an isolated
environment
- Application = Layer of images
- Sharable Environments
- Environments as code