day1 tools r - fixo3 workshop materials/a... · 2016. 10. 28. · tools: r • open source...
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Toolsfordataprocessing:R
PieterProvoost
IOC-UNESCO
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Tools:R
• Opensourceenvironment forstatisticalcomputingandgraphics
• Createdin1993attheUniversityofAuckland, inspiredbyS
• Rapidlygainingpopularity formachinelearningandbusiness intelligence
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Tools:R
• WhyR?
• Automate
• Datacleaning
• Qualitycontrol
• Analysis
• Datapublishing
• Easilymakechangestoyourworkflowandrerunanalysis
• Reproducible research!
• http://rpubs.com/benmarwick/csss-rr
• https://rpubs.com/marschmi/105639
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Tools:R
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Tools:R
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Tools:R
• TheRecosystem
• RCoreTeam,http://r-project.org
• Packages
• CRAN(TheComprehensive RArchiveNetwork):8600packages
• Bioconductor
• rOpenSci
• Omegahat
• GitHub
• RUserGroups
• Enterprise
• RevolutionAnalytics(Microsoft RServer)
• RStudio:RStudio IDE,Shiny(webapplications)
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Tools:R
• Introduction toR
• http://beta.iobis.org/manual/intror/
• http://rforcats.net/ (ScottChamberlain)
• http://swirlstats.com/
• Installation
• InstallRfromhttps://cloud.r-project.org/
• InstallRStudio fromhttps://www.rstudio.com/products/rstudio/download/
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Tools:R
• RStudio
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Tools:R
• Demo1:introduction
• https://github.com/iobis/training/tree/master/fixo3
• OBISRpackage
• https://github.com/iobis/robis
• Installation
• ggplot
• http://www.r-graph-gallery.com/all-graphs/
• http://tutorials.iq.harvard.edu/R/Rgraphics/Rgraphics.html
• https://github.com/jrnold/ggthemes
install.packages("devtools")
devtools::install_github("iobis/robis")
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Tools:R
• Demo2:cleaningdata
• leaflet
• https://rstudio.github.io/leaflet/
• exportmap
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Tools:R
• Demo3:rOpenScipackages
• https://ropensci.org
• packages
• rfishbase:interfacetofishbase.org
• rgbif:interfacetoGBIF
• mapr:speciesoccurrencemaps
• spocc:speciesoccurrencetoolkit
• rredlist:interfacetoIUCNRedList
• taxize:searchtaxonomicdatasources
• finch:readDwC-Afiles
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Tools:R
• Demo4:dataanalysis
• reshape
• http://www.statmethods.net/management/reshape.html
• vegan
• http://cc.oulu.fi/~jarioksa/opetus/metodi/vegantutor.pd