Most of the commonly used R packages for analysis of ecological data are available from CRAN, and to install them, you can use install.packages command in R. Optionally, there is a few other text editors, which can be associated with R, e.g. The workaround is to use RStudio for coding, but open the original R graphics device and use it for plotting (in Windows, type windows () into the console and a new active window will open you can move it around the screen, or right-click on it by mouse and select “Stay on top” to keep it as the top window always visible on your screen). One thing I found a bit not handy is the RStudio's graphical output - it offers its' own unique sizeable graphical output into one of the subpanels, but this sometimes produces troubles (especially in the case when you draw more complex figures). RStudio is a convenient software, which combines the R program with a text editor and graphical interface (and offers much more, like the organization of scripts and outputs into projects within a single folder, and for advanced users also a convenient building of packages, document markup etc.). If you already have RStudio installed on your computer, you may check whether you have the latest version and update if you don't (in the RStudio menu, go to Help > Check for Updates). After you installed R on your computer, download the latest version of RStudio from RStudio website and follow instructions for installation (or directly download the RStudio Desktop software for your operation platform in this link).
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