Monthly Archives: April 2012

Small pedigree based mixed model example

April 8, 2012
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Pedigree based mixed models (often called animal models, due to modelling animal performance) are the cornerstone of animal breeding and quantitative genetics. There are many programs that can be used for analyzing your data with these models, e.g., ASREML, BLUPf90, MATVEC, MiXBLUP & MiX99,  SurvivalKit, PEST/VCE, WOMBAT, ...). There are also R packages you...

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Sorting the "Sample Sets" by constituents

April 8, 2012
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Sorting the "Sample Sets" by constituents

I use to see the videos from:http://www.twotorials.com/and the video:How to order and sort stuff in Ris really useful to apply this concept to organize and understand better our sample sets before to proceed to develop a calibration.The idea of this po...

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Predicting apple liking from instrumental data

April 8, 2012
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Predicting apple liking from instrumental data

In this post I will examine if the individual models from previous posts together would make a good predictive model. Obviously, predictive capability is different from descriptive capability, predictions usually have a more simple model. As there was ...

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Course: Analysing Palaeolimnological Data with R

April 8, 2012
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Course: Analysing Palaeolimnological Data with R

Update: As of 18 April 2012 the course is now fully subscribed. Should you wish to be placed on a waiting list please contact Steve Juggins. Analysing Palaeolimnological Data with R 16th — 20th August 2012, University Marine Biological Station … Continue reading →

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Course: Analysing Palaeolimnological Data with R

April 8, 2012
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16th — 20th August 2012, University Marine Biological Station Millport, Isle of Cumbrae, Scotland. Steve Juggins and I will be running a 4-day residential R course to coincide with the International Paleolimnology Symposium 2012 this August. The course will be held at the University Marine Biological Station Millport on the Isle of Cumbrae, within easy...

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Using bigmemory for a distance matrix

April 7, 2012
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Using bigmemory for a distance matrix

The process of working on metadata and temperature series gives rise to several situations where I need to calculate the distance from every station to every other station. With a small number of stations this can be done easily on the fly with the result stored in a matrix. The matrix has rows and columns

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Newton’s Method In R

Here is a toy example of implementing Newton’s method in R. I found some old code that I had written a few years ago when illustrating the difference between convergence properties of various root-finding algorithms, and this example shows a … Continue reading →

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What are the distributions on the positive k-dimensional quadrant with parametrizable covariance matrix? (solved)

April 7, 2012
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What are the distributions on the positive k-dimensional quadrant with parametrizable covariance matrix? (solved)

Paulo (from the Instituto de Matemática e Estatística, Universidade de São Paulo, Brazil) has posted an answer to my earlier question both as a comment on the ‘Og and as a solution on StackOverflow (with a much more readable LaTeX output). His solution is based on the observation that the multidimensional log-normal distribution still allows

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Writing reproducibly in the open with knitr

April 7, 2012
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Writing reproducibly in the open with knitr

Sweave is something of a gold standard in reproducible research. It creates a dynamic document, written in a mix of LaTeX and R code where the results of the analysis (numbers, figures, tables) are automatically generated from the code and inserted into the resulting pdf document, making them easy to update if the data or

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An R programmer looks at Julia

April 7, 2012
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In January of this year I first saw mention of the Julia language in the release notes for LLVM. I mentioned this to Dirk Eddelbuettel and later we got in contact with Viral Shahregarding a Debian package for Julia. There are many aspects of Julia tha...

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