https://github.com/le-ander/msc_bioinfo-experimental_design
Using information theory to inform experimental design with GPU acceleration. Computing group project as part of the MSc in Bioinformatics and Theorectical Systems Biology at Imperial College London 2016/2017.
https://github.com/le-ander/msc_bioinfo-experimental_design
cuda experimental-design gpu-computing information-theory pycuda systems-biology
Last synced: 2 months ago
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Using information theory to inform experimental design with GPU acceleration. Computing group project as part of the MSc in Bioinformatics and Theorectical Systems Biology at Imperial College London 2016/2017.
- Host: GitHub
- URL: https://github.com/le-ander/msc_bioinfo-experimental_design
- Owner: le-ander
- License: mit
- Created: 2017-01-27T13:31:00.000Z (over 9 years ago)
- Default Branch: master
- Last Pushed: 2018-05-03T12:55:29.000Z (about 8 years ago)
- Last Synced: 2025-06-03T10:47:13.851Z (about 1 year ago)
- Topics: cuda, experimental-design, gpu-computing, information-theory, pycuda, systems-biology
- Language: Python
- Homepage: https://doi.org/10.1093/bioinformatics/btx776
- Size: 4.9 MB
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE.txt
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README
# PEITHO - EXPERIMENTAL DESIGN
## ABSTRACT
Different experiments provide differing levels of information about a biological system.
This makes it difficult, a priori, to select one of them beyond mere speculation and/or
belief, especially when resources are limited. Herein we present PEITH(Θ), a general
purpose, command line interface built in Python, and developed to tackle the problem
of experimental selection using information theory. PEITH(Θ) extends the work of Liepe
et al. [1] giving users the capability to simulate a range of experiments and make a
selection beyond guesswork.
## REFERENCES
[1] J. Liepe, S. Filippi, M. Komorowski, and M. P. Stumpf, “Maximizing the information content of experiments in systems biology,” PLoS Comput Biol, vol. 9, no. 1,
p. e1002888, 2013.