Publications by Bart Rogiers
R and the Geostatistical Software Library data format
The *.gslib file format originates from the Geostatistical Software Library, but is also used in the follow-up of that software, i.e. the Stanford Geostatistical Modelling Software (SGeMS). Since not all geostatistical algorithms are implemented in R yet (especially the multiple-point ones), it is useful to have these functions for interacting ...
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Use R!
In short: R is a free intuitive programming language that is used by practitioners in a plethora of academic disciplines. Therefore, it is on the cutting edge, and expanding rapidly. It creates stunning visuals, works seamlessly together with LaTeX, has really good online documentation and the community is unparalleled. [1, 2, 3, 4] A week or two...
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R and the Geotechnical Exchange Format
Quite some time ago now, I wrote this function to read some *.gef files into R. “gef” stands for Geotechnical Exchange Format. Details on this data format can be found at http://www.geffiles.nl/, as well as several software tools. I had a long list of very specific *.gef files, so the function is not very generic, but it might pro...
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R and MODFLOW
Here are some functions for reading and writing MODFLOW files from R. I hope to update this in the future!################################################################################ ### read.modflow.pval ########################################################## ################################################################################...
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Use R! – Part 2
Here is a follow-up of my first post about using R. For our yearly KU Leuven Geology PhD Seminar (08-09/05/2012), I quickly pasted this script together from several examples I had run into in the past, as well as some things that I have been doing myself in R. Be aware these analyses of the Meuse dataset are not always very useful! This was just ...
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Digitize linear and (semi-)log scale graphs with multiple point sets
Working on a paper, I ran into the problem of needing data from a graph that was not mine, and for which no underlying table was published. With today’s software packages, it is however not very difficult to digitize a figure yourself. I remembered reading something about it on R-bloggers or in the R journal, and it turns out both had useful i...
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Estimation of hydraulic conductivity and its uncertainty from grain-size data using GLUE and artificial neural networks.
AbstractVarious approaches exist to relate saturated hydraulic conductivity (Ks) to grain-size data. Most methods use a single grain-size parameter and hence omit the information encompassed by the entire grain-size distribution. This study compares two data-driven modelling methods—multiple linear regression and artificial neural networks—th...
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R and the SGeMS blockdata format
The popular geostatistical software SGeMS has some options for working with non-point support (block) data through the BGeost set of algorithms by Yongshe Liu (see his PhD thesis), and published in Liu and Journel (2009). A specific but fairly simple data format is required to get your block data into SGeMS.If you have a set of square data sup...
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2D MODPATH particle tracking animations with R and ImageMagick
The PMPATH particle tracking output, with a file format similar to the pathline output mode of MODPATH (see above), can be transformed easily into a GIF animation using R and ImageMagick (see below for a simple example).First of all, you need a working installation of ImageMagick and you have to install and load the R animation package. Poss...
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RGLUEANN package available on GitHub
The RGLUEANN package is now available on GitHub at http://github.com/rogiersbart/RGLUEANN. The package provides an R implementation of the coupling between general likelihood uncertainty estimation (GLUE) and artificial neural networks (ANNs), as presented in our 2012 Mathematical Geosciences paper. It is basically a probabilistic non-linear da...
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