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winarl35.zip | Contains WinArl35.exe, arlecore64.exe, R graphic functions, XML stylescheet, and example files. |
arlecore_win.zip | Contains 32 and 64 bit versions of arlecore, as well as a bash script to automatically analyse all arlequin project files present in a given directory. Read the arlecore readme file before using it. |
arlsumstat_win.zip | Contains 32 and 64 bit versions of arlsumstat.exe to compute summary statistics from arlequin projects, a summary statistics definition file, and a bash script to launch it in a Linux environment (you need to install cygwin under windows) . Read the arlsumstat readme file before using it. |
Example files_win.zip | Contains examples of arlequin projects. |
test_arlsumstat.zip | Example of the usage of arlsumstat to calculate summary statistics from arlequin projects generated by simcoal3. The bash script test_arlsumstat.sh will call simcoal3 to simulate a sample drawn from a stationary population and studied at 10 microsatellite loci. Simulated samples will be then analyzed with arlsumstat and output written to a new file. |
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Here is also a link on the R-statistical package to download R if you want to be able to generate graphics from Arlequin XML output files.
When was the last time you update your R and RStudio?
I installed RStudio and R a year ago, and never update it since then. Today I just noticed I cannot install new R packages because of my old R version. So I explore some ways to update R and would like to share with someone who is also looking to update R on RStudio.
The problem
RStudio and R cannot update on their own because some packages may not work after switching to the new version (You can still downgrade R version in RStudio if something went wrong though). How to download office 365 apps on mac. After you install the new version, the previously installed packages will not go to next version. So it is required extra procedures to move the packages.
Here are 3 ways you can update R version in RStudio. Note that we need to move the install R packages, which I will show how at the end.
3 Solutions to update R on RStudio
Solution 1) Manually install (Recommended if you don't care about the old packages)
Download R Version 3.5.2 For Mac 64-bit
The first method is to download a new version of R from R website > CRAN. Then restart your RStudio. The new R version will be loaded automatically.
![Download Download](/uploads/1/3/3/2/133271662/736306110.png)
https://fanew.weebly.com/free-download-dreamweaver-cs6-full-version-for-mac.html. The new R version appear right after I install R and restart RStudio
Update 29/05/2019: For Mac users, solution 3 is too painful and not working well for me. This method is fast and working well. I would recommend to save your time from headache and use this method. Take note of your previous packages so you can install them again as needed.
Solution 2) Windows only – use installr
installr is the R package which helps install and update software.
The R code you will need for updating R is: (credit goes to Cara Wogsland for the code)
install.packages('installr')
library(installr)
updateR()
You can find the tutorial on how to use installr to update RStudio on R-Statistics website.
Solution 3) Mac only – use updateR
Similar to installr, updateR is the package to help updating R on Mac OS.
The R code you will need is these 5 lines: (credit goes to jroberayalas for the code)
install.packages('devtools') #assuming it is not already installed
library(devtools)
install_github('andreacirilloac/updateR')
library(updateR)
updateR(admin_password = 'Admin user password')
You can find in-depth tutorial on how to use updateR package on this blog.
How to move the previously installed R packages
This is the instructions for Mac OS user (who used solution 1 or 3 above). For Windows user, installr package will do this for you
(credit goes to RyanStochastic and micstr):
1. Move all folders from your old R version to new R version.
/Library/Frameworks/R.framework/Versions/x.xx/Resources/library
Replace x.xx with the old and new R version at a time.
Note that you have to move only the packages that are not currently in the destination folder (because those are the base packages, and you don’t want to ruin them). But if you already did replaced everything, the next step will solve this for you.
If you cannot find the proper path, you can run this command to check: installed.packages()
2. Update the moved packages
Run the following command in R. Type ‘y’ for every question that popped up.
update.packages(checkBuilt=TRUE)
3. Type the following command in R to check if everything went well
version
packageStatus()
That’s it! Hope you guys success in updating R. If not, please check in the reference link below.
Download R Version 3.5.2 For Mac Download
References: https://stackoverflow.com/questions/13656699/update-r-using-rstudio