In bobverity/MALECOT: Joint estimation of COI and population structure for malaria genetic data

Installing Rcpp

MALECOT relies on the Rcpp package, which requires the following OS-specific steps:

• Windows
  • Download and install the appropriate version of Rtools for your version of R. On installation, ensure you check the box to arrange your system PATH as recommended by Rtools
• Mac OS X
  • Download and install XCode
  • Within XCode go to Preferences : Downloads and install the Command Line Tools
• Linux (Debian/Ubuntu)

  • Install the core software development utilities required for R package development as well as LaTeX by executing

    {} sudo apt-get install r-base-dev texlive-full

Installing and loading MALECOT

Next, in R, ensure that you have the devtools package installed by running

install.packages("devtools", repos='http://cran.us.r-project.org')

Then install the MALECOT package directly from GitHub by running

devtools::install_github("bobverity/malecot")

If you have any problems installing then please raise an issue on github.

Assuming everything installed correctly, we need to load the package:

library(MALECOT)

You can test that the package is loaded and working by running the following command, which should produce this output:

check_MALECOT_loaded()

Now check out the tutorials on how to run analyses in MALECOT.

bobverity/MALECOT documentation built on May 13, 2019, 4:01 a.m.