Using Free/Libre and Open Source Software in the Geological Sciences

D, Mader; Schenk, Bettina

doi:10.17738/ajes.2017.0010

Cited by 6 publications

(2 citation statements)

References 101 publications

(101 reference statements)

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…The ideal solution for the development and distribution of mineralogical software is the Free and Open-Source Software (FOSS) model (Mader and Schenk 2017), utilizing one of the free, feature-rich, and platform-independent programming languages designed for scientific computation. This essentially rules out costly commercial packages such as Mathematica, MATLAB, S-Plus, or Statistica.…”

Section: 'Under the Hood' -Technical Implementationmentioning

confidence: 99%

GCDkit.Mineral – a customizable, platform-independent R-language environment for recalculation, plotting and classification of electron-probe micro-analyses of common rock-forming minerals

2024

msam

View full text Add to dashboard Cite

GCDkit.Mineral is a platform-independent (Windows/Mac/Linux) freeware for recalculation, plotting and statistical treatment of mineral data obtained by microbeam techniques, typically an electron microprobe. It is written in R, a language providing a feature-rich environment for statistics and data visualization.This new program imports compositional data in a variety of commonly used file formats, or retrieves them from the clipboard. Routines are available for data management, i.e. grouping, searching, and generation of subsets, using regular expressions and Boolean logic. Raw compositional data (wt.%) are recalculated to atoms per formula unit (apfu) based on a required number of O equivalents, atoms or charges, with or without, Fe II /Fe III estimation by a variety of methods. Analyses may then be recast to structural formulae; i.e. the atoms are distributed into appropriate crystallographic sites. For minerals forming solid solutions, the molar percentages of end members are computed. All the data may be treated statistically, either by built-in functions for descriptive and multivariate statistics, or using the wealth of tools provided by the wide R community.Raw and recalculated mineral data may be plotted on assorted binary and ternary plots, and boxplots. Most are defined as internal templates that provide a means to make later changes to the plot (zooming and scaling, adding comments or legend, identifying data points, altering the size or color of the plotting symbols, etc.). The publication-ready graphics may be saved into a number of vector-(PostScript, PDF and WMF) and bitmap-based (e.g., PNG, TIF and JPG) formats, ready to be imported into a professional graphical, presentation, or desktop publishing software.Importantly, the graphical templates are used as a basis for classification. The general classification routine looks for the name of the polygon within the diagram (= graphical template), into which the analysis falls according to its x-y coordinates. The outcome may be This is the peer-reviewed, final accepted version for American Mineralogist, published by the Mineralogical Society of America.The published version is subject to change. Cite as Authors (Year) Title. American Mineralogist, in press.

show abstract

Section: 'Under the Hood' -Technical Implementationmentioning

confidence: 99%

GCDkit.Mineral – a customizable, platform-independent R-language environment for recalculation, plotting and classification of electron-probe micro-analyses of common rock-forming minerals

2024

msam

View full text Add to dashboard Cite

show abstract

“…Además, para trabajar con los datos de las direcciones obtenidos en estos procesos hemos hecho uso de los softwares Stereonet (Allmendinger et al, 2012) y OpenStereo (Grohmann et al, 2011). (Mader & Schenk, 2017) resaltan el uso de los softwares libres y de código abierto; y el motivo principal de usar estos softwares (Tabla 1) se basa en que no genera ningún costo y se pueden realizar los mismos procesos que los softwares comerciales.…”

Section: Introductionunclassified

Uso de software libre y de código abierto para la identificación de lineamientos estructurales y realce de estructuras geológicas

Enriquez

Abanto

Laura

et al. 2021

Rev. Inst. investig. Fac. minas metal cienc. geogr

View full text Add to dashboard Cite

El objetivo principal de este estudio consiste en el uso de software libre y de código abierto para identificar lineamientos estructurales y el realce de estructuras geológicas, sin la necesidad de usar softwares comerciales. En este estudio se utilizó un modelo de elevación digital (DEM) con una resolución de 12.5 m ALOS PALSAR, sobre el cual se aplicaron distintas técnicas de visualización de relieve obteniendo lineamientos estructurales y realce de estructuras geológicas (posibles fallas), además se realizaron gráficos de rosetas e histogramas, con ayuda de software libre y de código abierto como son QGIS 3.4.12, SAGA GIS, Stereonet y OpenStereo. Los lineamientos se analizaron mediante la frecuencia de azimut, usando diferentes métodos; Sombreamiento multidireccional, Sombreamiento con variación de luz cada 30°, Sombras combinadas, Mapa de Imagen de Relieve Rojo; y finalmente se realizó la obtención y procesamiento de lineamientos estructurales con cada técnica de visualización, se obtuvieron 745 con la técnica de sombreamiento multidireccional, 1173 por sombreamiento con variación de luz cada 30°, 736 y 749 por las sombras combinadas 1 y 2 respectivamente y 139 estructuras geológicas que representan fallas inferidas con la técnica de Mapa de Imagen de Relieve Rojo (RRIM); los cuales indican una tendencia en dirección andina NW-SE. Para complementar la interpretación se generaron gráficos de rosetas e histogramas para cada tipo de método, que al compararlas se encontraron 6 tendencias generales; se observa que las tendencias obtenidas en los diferentes procesos presentan similitud con la dirección de las fallas regionales presentes en la zona de estudio. Se concluye que las técnicas utilizadas son fiables, útiles y complementarias entre sí, para reconocer, analizar, determinar e interpretar lineamientos estructurales en una etapa de pre-campo con ayuda de Software libre y de código abierto.

show abstract

Developing a 3D hydrostratigraphical model of the emerged part of the Pelotas Basin along the northern coast of Rio Grande do Sul state, Brazil

Marquetto,

Jüstel,

Troian

et al. 2024

Environ Earth Sci

View full text Add to dashboard Cite

The coastal plain of Rio Grande do Sul state, in Brazil, is highly vulnerable to expected changes in sea level, while having an increasing population and consequently increasing water demands. Adequate management is essential to restrain contamination, depletion and salinization of the region’s aquifers considering current and future challenges, but geologic knowledge is essential to guide groundwater sustainable practices. To contribute to this discussion, this work integrated existing geological data from the northern coast of Rio Grande do Sul state to create a three-dimensional representation of the main hydrostratigraphical units of the region and its relation to the basement rocks, expanding the current knowledge of the coastal aquifer system. A review of existing data was carried out, consisting of 307 borehole logs from 13 municipalities inside the area of interest, as well as 19 vertical electrical soundings and 37 logs from oil and coal exploratory drillings, that resulted in 315 input points for the model. This work builds up on the conceptual model previously developed for the area, that defined four hydrostratigraphical units for the region, and was able to constrain the geometries of the main aquifers (unit 1 and 3) and aquitards (unit 2 and 4) and their relation to the basement rocks, showing them to be more heterogeneous in thicknesses and extent than previously thought. In addition, this work was able to model what could be a fifth hydrostratigraphical unit, that strongly differs from the other four and could be an indication of the alluvial fans previously described in the literature.

show abstract

Using Free/Libre and Open Source Software in the Geological Sciences

Cited by 6 publications

References 101 publications

GCDkit.Mineral – a customizable, platform-independent R-language environment for recalculation, plotting and classification of electron-probe micro-analyses of common rock-forming minerals

GCDkit.Mineral – a customizable, platform-independent R-language environment for recalculation, plotting and classification of electron-probe micro-analyses of common rock-forming minerals

Uso de software libre y de código abierto para la identificación de lineamientos estructurales y realce de estructuras geológicas

Developing a 3D hydrostratigraphical model of the emerged part of the Pelotas Basin along the northern coast of Rio Grande do Sul state, Brazil

Contact Info

Product

Resources

About