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nigel delaney

Nigel Delaney, Evolution and Statistics

http://www.evolvedmicrobe.com/

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Nigel Delaney

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Nigel Delaney, Evolution and Statistics
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nigel delaney | evolvedmicrobe.com Reviews

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Nigel Delaney, Evolution and Statistics

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1

Intra-genetic epistasis and the inference Problem

http://www.evolvedmicrobe.com/EpistasisQTL.html

Evolutionary biologist, statistician, nice guy. Epistasis and the inference problem. Is defined by the low cost of sequencing data. This makes studies that attempt to explain biological variation by sequencing many individuals that vary for a trait and then model that trait as a function of the genotypes easy to perform. Progress is therefore typically only made in limited studies where the trait distinctly varies between diverged populations or ethical breeding is possible. However, since most proteins ...

2

Software

http://www.evolvedmicrobe.com/Software.html

Evolutionary biologist, statistician, nice guy. Accurate allele frequency estimation using Illumina Sequencing. Open Source Lab Automation Software. Now Hosted at Google Code. If the power goes or another disaster strikes the computer running Clarity, this program will let you know, allowing for fail-safe error notification.

3

Lab Automation

http://www.evolvedmicrobe.com/LabAutomation.html

Evolutionary biologist, statistician, nice guy. Lab Automation, Protocol Development and Fast Reproducible Experiments. Central to good science is the ability to take reproducible measurements in a cost and time effective way. For studies that focus on bacterial physiology and fitness, this means highly accurate and stable growth rate measurements. That allowed for arbitrary research designs and equipment integration to circumvent these limitations. I used response surface methodologies. Method of optimi...

4

Comparative Methods

http://www.evolvedmicrobe.com/JointEstimation.html

Evolutionary biologist, statistician, nice guy. Comparative methods, do we think we know more than we do? Collaborators: Martin Lysy, Yoel Stuart. To correct a shortcoming in an approach taken by many, I am creating explicit and complete methods for estimating extinction and speciation rates using present day taxa. And in particular, how could one possibly estimate an extinction rates if we never see a species go extinct? I am doing this with a case study of Caribbean anole lizards, which have radiated o...

5

nigel delaney | evolutionary biologist, statistician, nice guy

http://www.evolvedmicrobe.com/blogs

Evolutionary biologist, statistician, nice guy. C# vs Java, Xamarin vs. Oracle, Performance Comparison version 2.0. Today I noticed the SIMD implementation of the Mandelbrot set algorithm I blogged about last year was successfully submitted to the language shootout webpage. However, I was a bit disappointed to see the C# version was still slower than the Java version, despite my use of the special SIMD instructions (though I was pleased that a quick port of my code to F#. C# may use a lot less memory, bu...

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marxlab.org marxlab.org

People | marxlabui

https://marxlab.org/people

Marx Laboratory, University of Idaho. DOE: Community Sequencing Program. People and Contact Information. Christopher J. Marx. University of Idaho Department of Biological Sciences. Institute for Bioinformatics and Evolutionary Studies. Center for Modeling Complex Interactions. Gibb 134 875 Perimeter Drive MS 3051 Moscow, ID 83844-3051 cmarx@uidaho.edu. Photo is with Rasmus and Solvei in Jasper National Park. Sstolyar (at) uidaho.edu. Lchubiz (at) fas.harvard.edu. Scarroll (at) oeb.harvard.edu. My work ex...

marxlab.org marxlab.org

New paper; another Faculty of 1000 recommendation; and Mary Lidstrom elected to the National Academy of Sciences | marxlabui

https://marxlab.org/2013/05/02/new-paper-another-faculty-of-1000-recommendation-and-mary-lidstrom-elected-to-the-national-academy-of-sciences

Marx Laboratory, University of Idaho. DOE: Community Sequencing Program. New paper; another Faculty of 1000 recommendation; and Mary Lidstrom elected to the National Academy of Sciences. Less than two weeks after the last post, there is more happy news to report. Came out yesterday that describes the end result of an extended effort to push. Describing software to run automated lab systems. Molecular Biology and Evolution. Paper demonstrating tremendous selection upon codons was recommended. May 2, 2013.

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nigel delaney

Evolutionary biologist, statistician, nice guy. These pages contain an overview of my research, software I have written and descriptions of short research projects in a blog. I study how interactions between mutations affects evolutionary trajectories and outcomes. Robots and Response Surfaces. I use laboratory automation and response surface methodologies to create protocols and methods that allow for experiments to be accurately and easily performed on a large scale. Epistasis and Association Studies.

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