Geomed19.bib

@article{sfa,
  title={OpenGIS Implementation Standard for Geographic information-Simple feature access-Part 1: Common architecture},
  author={Herring, John R},
  journal={Open Geospatial Consortium Inc},
  pages={111},
  year={2011},
  url = {http://portal.opengeospatial.org/files/?artifact_id=25355}
}

@article{sfa2,
  title={OpenGIS Implementation Standard for Geographic Information-Simple feature access-Part 2: SQL option},
  author={Herring, John R},
  journal={Open Geospatial Consortium Inc},
  year={2010},
  url={http://portal.opengeospatial.org/files/?artifact_id=25354}
}

@article{geojson,
  title={The GeoJSON Format},
  author={H. Butler and M. Daly and A. Doyl and S. Gillies and S. Hagen and T. Schaub},
  year={2016},
  publisher={Internet Engineering Task Force (IETF)},
  volume={Request for Comments: 7946},
  issn={2070-1721},
  url ={https://tools.ietf.org/html/rfc7946}
}
@article{geosparql,
  title={OGC GeoSPARQL-A geographic query language for RDF data},
  author={Perry, Matthew and Herring, John},
  journal={OGC Implementation Standard, ref: OGC},
  year={2012}
}
@article{scheider,
author = {Simon Scheider and Benedikt Gräler and Edzer Pebesma and Christoph Stasch},
title = {Modeling spatiotemporal information generation},
journal = {International Journal of Geographical Information Science},
volume = {30},
number = {10},
pages = {1980-2008},
year = {2016},
url = {https://doi.org/10.1080/13658816.2016.1151520}
}
@incollection{gdal,
  title={The geospatial data abstraction library},
  author={Warmerdam, Frank},
  booktitle={Open source approaches in spatial data handling},
  pages={87--104},
  year={2008},
  publisher={Springer}
}

@manual{knudsen+evers17,
author={Thomas Knudsen and Kristian Evers}, 
year={2017},
title={Transformation pipelines for PROJ.4},
note={Geophysical Research Abstracts, Vol. 19, EGU2017-8050},
url={https://meetingorganizer.copernicus.org/EGU2017/EGU2017-8050.pdf}
}

@manual{evers+knudsen17,
author={Kristian Evers and Thomas Knudsen}, 
year={2017},
title={Transformation pipelines for PROJ.4},
note={FIG Working Week 2017 Proceedings},
url={https://www.fig.net/resources/proceedings/fig_proceedings/fig2017/papers/iss6b/ISS6B_evers_knudsen_9156.pdf}
}
@article{brodyetal:00,
   author = {H. Brody and M. R. Rip and P. Vinten-Johansen and N. Paneth and S. Rachman},
   title = {Map-making and myth-making in {B}road {S}treet: the {L}ondon cholera epidemic, 1854},
   journal = {Lancet},
   volume = {356},
   pages = {64--68},
   year = {2000}
}
@Book{osullivan+unwin:03,
	author =	{D. O'Sullivan and D. J. Unwin},
	title = 	{Geographical Information Analysis},
	year =		{2003},
	publisher =	{Wiley},
	address =	{Hoboken, NJ}
}
@Article{muenchowetal17,
    title = {{RQGIS: Integrating R with QGIS} for Statistical Geocomputing},
    author = {Jannes Muenchow and Patrick Schratz and Alexander Brenning},
    journal = {The {R} Journal},
    year = {2017},
    volume = {9},
    issue = {2},
    pages = {409--428},
    note = {Accepted for publication on 2017-12-04},
    url = {https://rjournal.github.io/archive/2017/RJ-2017-067/RJ-2017-067.pdf},
}
@Article{bucklin+basille18,
    title = {rpostgis: linking {R} with a {PostGIS} spatial database},
    author = {David Bucklin and Mathieu Basille},
    journal = {The R Journal},
    volume = {10},
    number = {1},
    pages = {251-268},
    year = {2018},
    url = {https://journal.r-project.org/archive/2018/RJ-2018-025/index.html},
}

@article{doi:10.1111/ecog.04617,
author = {Hesselbarth, Maximilian H. K. and Sciaini, Marco and With, Kimberly A. and Wiegand, Kerstin and Nowosad, Jakub},
title = {landscapemetrics: an open-source R tool to calculate landscape metrics},
journal = {Ecography},
volume = {0},
number = {0},
pages = {},
keywords = {landscape analysis, landscape indices, landscape mosaic model, open-source software, R software, sampling design},
doi = {10.1111/ecog.04617},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/ecog.04617},
eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1111/ecog.04617},
abstract = {Quantifying landscape characteristics and linking them to ecological processes is one of the central goals of landscape ecology. Landscape metrics are a widely used tool for the analysis of patch-based, discrete land-cover classes. Existing software to calculate landscape metrics has several constraints, such as being limited to a single platform, not being open-source or involving a complicated integration into large workflows. We present landscapemetrics, an open-source R package that overcomes many constraints of existing landscape metric software. The package includes an extensive collection of commonly used landscape metrics in a tidy workflow. To facilitate the integration into large workflows, landscapemetrics is based on a well-established spatial framework in R. This allows pre-processing of land-cover maps or further statistical analysis without importing and exporting the data from and to different software environments. Additionally, the package provides many utility functions to visualize, extract, and sample landscape metrics. Lastly, we provide building-blocks to motivate the development and integration of new metrics in the future. We demonstrate the usage and advantages of landscapemetrics by analysing the influence of different sampling schemes on the estimation of landscape metrics. In so doing, we demonstrate the many advantages of the package, especially its easy integration into large workflows. These new developments should help with the integration of landscape analysis in ecological research, given that ecologists are increasingly using R for the statistical analysis, modelling and visualization of spatial data.}
}

@article{bivand:00,
   author = {R. S. Bivand},
   title = {Using the {\RR} statistical data analysis language on {GRASS} 5.0 {GIS} data base files},
   journal = {Computers and Geosciences},
   volume = {26},
   pages = {1043--1052},
   year = {2000}
}
@incollection{bivand:14,
  author = {R. S. Bivand},
  editor = {Robert J. Abrahart and Linda See},
  title = {GeoComputation and Open-Source Software : Components and Software Component Stacks},
  booktitle = {GeoComputation (Second Edition)},
  year = {2014},
  publisher = {CRC Press},
  address = {Boca Raton, FL},
  pages = {329--255}
}
@Book{neteler+mitasova:08,
	author =	{M. Neteler and H. Mitasova},
	title = 	{Open Source {GIS}: A {GRASS} {GIS} Approach, Third Edition},
	year =		{2008},
	publisher =	{Springer},
	address =	{New York}
}

@article{LAPA2001,
   title = {{Vigilância da hanseníase em Olinda, Brasil, utilizando técnicas de análise espacial}},
   journal = {{Cadernos de Saúde Pública}},
   author={Lapa, Tiago and Ximenes, Ricardo and Silva, Nilza Nunes and Souza, Wayner and Albuquerque, Maria de Fátima Militão and Campozana, Gisele},
   ISSN = {0102-311X},
   language = {pt},
   URL = {http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0102-311X2001000500016&nrm=iso},
   volume = {17},
   year = {2001},
   month = {10},
   pages = {1153 - 1162},
   publisher = {scielo},
   doi = {10.1590/S0102-311X2001000500016},
}
@Article{giraud+lambert16,
    doi = {10.21105/joss.00054},
    url = {http://dx.doi.org/10.21105/joss.00054},
    year = {2016},
    month = {aug},
    publisher = {The Open Journal},
    volume = {1},
    number = {4},
    author = {Timothée Giraud and Nicolas Lambert},
    title = {cartography: Create and Integrate Maps in your R
      Workflow},
    journal = {JOSS},
}

@InProceedings{giraud+lambert17,
    booktitle = {Advances in Cartography and GIScience. ICACI 2017.
      Lecture Notes in Geoinformation and Cartography.},
    author = {Timothée Giraud and Nicolas Lambert},
    editor = {Michael Peterson},
    title = {Reproducible Cartography},
    chapter = {13},
    publisher = {Springer},
    address = {Cham, Switzerland},
    year = {2017},
    pages = {173-183},
    doi = {10.1007/978-3-319-57336-6_13},
}


@article{JSSv084i06,
   author = {Martijn Tennekes},
   title = {tmap: Thematic Maps in R},
   journal = {Journal of Statistical Software, Articles},
   volume = {84},
   number = {6},
   year = {2018},
   keywords = {thematic maps; spatial data; R},
   abstract = {Thematic maps show spatial distributions. The theme refers to the phenomena that is shown, which is often demographical, social, cultural, or economic. The best known thematic map type is the choropleth, in which regions are colored according to the distribution of a data variable. The R package tmap offers a coherent plotting system for thematic maps that is based on the layered grammar of graphics. Thematic maps are created by stacking layers, where per layer, data can be mapped to one or more aesthetics. It is also possible to generate small multiples. Thematic maps can be further embellished by configuring the map layout and by adding map attributes, such as a scale bar and a compass. Besides plotting thematic maps on the graphics device, they can also be made interactive as an HTML widget. In addition, the R package tmaptools contains several convenient functions for reading and processing spatial data.},
   issn = {1548-7660},
   pages = {1--39},
   doi = {10.18637/jss.v084.i06},
   url = {https://www.jstatsoft.org/v084/i06}
}

@article{tidy,
   author = {Hadley  Wickham},
   title = {Tidy Data},
   journal = {Journal of Statistical Software},
   volume = {59},
   number = {1},
   year = {2014}
}
@Manual{GDAL0,
title = {GDAL - Geospatial Data Abstraction Library, Version 2.1.1},
author = {{GDAL Development Team}},
organization = {Open Source Geospatial Foundation},
year = {2017},
url = {http://www.gdal.org}, 
}
@Manual{GEOS,
title = {GEOS - Geometry Engine, Open Source},
author = {{GEOS Development Team}},
organization = {Open Source Geospatial Foundation},
year = {2017},
url = {https://trac.osgeo.org/geos/}
}
@book{iliffe,
pages = { 208 },
title = { Datums and Map Projections: For Remote Sensing, GIS and Surveying },
year = { 2008 },
author = { Jonathan Iliffe and Roger Lott },
publisher = {CRC Inc}
}
@book{sdsr,
title = { Spatial Data Science; uses cases in R },
year = { forthcoming },
author = { Edzer Pebesma and Roger S. Bivand },
url = { https://r-spatial.org/book/ },
publisher = {CRC}
}
@Article{classesmethods,
    author = {Edzer J. Pebesma and Roger S. Bivand},
    title = {Classes and methods for spatial data in {R}},
    journal = {R News},
    year = {2005},
    volume = {5},
    number = {2},
    pages = {9--13},
    month = {November},
    url = {https://CRAN.R-project.org/doc/Rnews/}
}
@Book{asdar,
    author = {Roger S. Bivand and Edzer Pebesma and Virgilio
      Gomez-Rubio},
    title = {Applied spatial data analysis with {R}, Second edition},
    year = {2013},
    publisher = {Springer, NY},
    url = {http://www.asdar-book.org/}
}

@Manual{rgdal,
    title = {rgdal: Bindings for the 'Geospatial' Data Abstraction Library},
    author = {Roger Bivand and Tim Keitt and Barry Rowlingson},
    year = {2017},
    note = {R package version 1.2-15},
    url = {https://CRAN.R-project.org/package=rgdal}
}
@Manual{rgeos,
    title = {rgeos: Interface to Geometry Engine - Open Source ('GEOS')},
    author = {Roger Bivand and Colin Rundel},
    year = {2019},
    note = {R package version 0.4-1},
    url = {https://CRAN.R-project.org/package=rgeos}
}

@article{RJ-2019-001,
  author = {Jan-Philipp Kolb},
  title = {{Using Web Services to Work with Geodata in R}},
  year = {2019},
  journal = {{The R Journal}},
  doi = {10.32614/RJ-2019-001},
  url = {https://journal.r-project.org/archive/2019/RJ-2019-001/index.html}
}

@article{tidydata,
   author = {Hadley  Wickham},
   title = {Tidy Data},
   journal = {Journal of Statistical Software, Articles},
   volume = {59},
   number = {10},
   year = {2014},
   issn = {1548-7660},
   pages = {1--23},
   url = {https://doi.org/10.18637/jss.v059.i10}
}
@Manual{tidyverse,
    title = {tidyverse: Easily Install and Load 'Tidyverse' Packages},
    author = {Hadley Wickham},
    year = {2017},
    note = {R package version 1.1.1},
    url = {https://CRAN.R-project.org/package=tidyverse}
}
@book{ggplot2,
  title={ggplot2: elegant graphics for data analysis},
  author={Wickham, Hadley},
  year={2016},
  publisher={Springer}
}
@Manual{dplyr,
    title = {dplyr: A Grammar of Data Manipulation},
    author = {Hadley Wickham and Romain Francois and Lionel Henry and Kirill Müller},
    year = {2017},
    note = {R package version 0.7.4},
    url = {https://CRAN.R-project.org/package=dplyr}
}
@Article{units,
    author = {Edzer Pebesma and Thomas Mailund and James Hiebert},
    title = {Measurement Units in {R}},
    journal = {The R Journal},
    year = {2016},
    volume = {8},
    number = {2},
    pages = {486--494},
    month = {december},
    url = {https://journal.r-project.org/archive/2016-2/pebesma-mailund-hiebert.pdf},
}

@Manual{raster,
    title = {raster: Geographic Data Analysis and Modeling},
    author = {Robert J. Hijmans},
    year = {2016},
    note = {R package version 2.5-8},
    url = {https://CRAN.R-project.org/package=raster},
}

@book{postgis,
  title={PostGIS in action},
  author={Obe, Regina O and Hsu, Leo S},
  year={2015},
  publisher={Manning Publications Co.}
}

@article{rcpp,
  title={Rcpp: Seamless R and C++ integration},
  author={Eddelbuettel, Dirk and Fran{\c{c}}ois, Romain and Allaire, J and Ushey, Kevin and Kou, Qiang and Russel, N and Chambers, John and Bates, D},
  journal={Journal of Statistical Software},
  volume={40},
  number={8},
  pages={1--18},
  year={2011}
}
@Book{dirk,
    title = {Seamless {R} and {C++} Integration with {Rcpp}},
    author = {Dirk Eddelbuettel},
    publisher = {Springer},
    address = {New York},
    year = {2013}
}

@article{aw,
title = "Accuracy of areal interpolation methods for count data",
journal = "Spatial Statistics",
volume = "14",
pages = "412 - 438",
year = "2015",
url = "https://doi.org/10.1016/j.spasta.2015.07.005",
author = "Van Huyen Do and Christine Thomas-Agnan and Anne Vanhems"
}
@Manual{sf,
    title = {sf: Simple Features for R},
	year = 2018,
    author = {Edzer Pebesma},
    note = {R package version 0.6-1},
    url = {https://CRAN.R-project.org/package=sf}
}
@inproceedings{cgal,
  title={CGAL: The computational geometry algorithms library},
  author={Fabri, Andreas and Pion, Sylvain},
  booktitle={Proceedings of the 17th ACM SIGSPATIAL international conference on advances in geographic information systems},
  pages={538--539},
  year={2009},
  organization={ACM}
}

@Manual{geosphere,
    title = {geosphere: Spherical Trigonometry},
    author = {Robert J. Hijmans},
    year = {2016},
    note = {R package version 1.5-5},
    url = {https://CRAN.R-project.org/package=geosphere},
}

@Manual{s2,
    title = {s2: Google's S2 Library for Geometry on the Sphere},
    author = {Ege Rubak and Jeroen Ooms},
	year = {2017},
    note = {R package version 0.1-1},
    url = {https://CRAN.R-project.org/package=s2}
}

@Manual{iso,
	title = { Geographic information -- Simple feature access -- Part 1: Common architecture},
	author = { ISO },
	note = { ISO 19125-1:2004 },
	year = { 2004 },
	url = { https://www.iso.org/standard/40114.html }
}

@Manual{lwgeom,
    title = {lwgeom: Bindings to Selected 'liblwgeom' Functions for Simple Features},
    author = {Edzer Pebesma},
    note = {R package version 0.1-5},
    url = {https://CRAN.R-project.org/package=lwgeom}
}
@Book{ripley:81,
	author =	{B. D. Ripley},
	title = 	{Spatial Statistics},
	year =		{1981},
	publisher =	{Wiley},
	address =	{New York}
}
@book{mueller:07,
author = {Werner G. Müller},
title = {Collecting Spatial Data: Optimum Design of Experiments for Random Fields},
year = {2007},
publisher = {Springer-Verlag},
address = {Berlin}
}
@book{baddeley2015spatial,
  title={Spatial point patterns: methodology and applications with R},
  author={Baddeley, Adrian and Rubak, Ege and Turner, Rolf},
  year={2015},
  publisher={{Chapman and Hall/CRC}},
  address={Boca Raton, FL}
}
@article{SCHRATZ2019109,
title = "Hyperparameter tuning and performance assessment of statistical and machine-learning algorithms using spatial data",
journal = "Ecological Modelling",
volume = "406",
pages = "109 - 120",
year = "2019",
doi = "https://doi.org/10.1016/j.ecolmodel.2019.06.002",
author = "Patrick Schratz and Jannes Muenchow and Eugenia Iturritxa and Jakob Richter and Alexander Brenning"
}
@article{wall:04,
   author = {M. M. Wall},
   title = {A close look at the spatial structure implied by the {CAR} and {SAR} models},
   journal = {Journal of Statistical Planning and Inference},
   volume = {121},
   pages = {311--324},
   year = {2004}
}
@book{geocompr,
  title={Geocomputation with R},
  author={Robin Lovelace and Jakub Nowosad and Jannes Muenchow},
  year={2019},
  publisher={{Chapman and Hall/CRC}},
  address={Boca Raton, FL},
  url={https://geocompr.robinlovelace.net/}
}
@article{pace+lesage:08,
author = {Pace, RK and {LeSage}, JP},
title = {A Spatial {H}ausman Test},
journal = {Economics Letters},
year = {2008},
volume = {101},
pages = {282--284}
}
@Article{alam-ronnegard-shen:2015,
  author       = {Moudud Alam and Lars R\"{o}nneg{\aa}rd and Xia Shen}, 
  title        = {Fitting Conditional and Simultaneous Autoregressive Spatial Models in hglm}, 
  journal      = {The {R} Journal},
  year         = 2015,
  volume       = 7,
  number       = 2,
  pages        = {5--18},
  month        = dec,
  url          = {https://doi.org/10.32614/RJ-2015-017}
}
@book{WallerGotway:2004,
   author    = {Lance A. Waller and Carol A. Gotway},
   title     = {Applied Spatial Statistics for Public Health Data},
   year      = {2004},
   publisher = {John Wiley \& Sons},
   address = {Hoboken, NJ}
}