Analysis scripts for 16S

Analysis scripts and discussion for the MEXT2D project.

Makes use of helper functions from our general pipeline.

Getting set up

To make installation easier all functionality required is implemented is delivered with a specialized R package. You can use the provided docker container from there or install it yourself.

You will need R (>=3.4). To install the package you will need devtools and bioconductor. Open an R session and run the following:

install.packages("devtools")
source("https://bioconductor.org/biocLite.R")
biocLite("BiocInstaller")
devtools::install_github("resendislab/mbtools")

Now you're ready to go :)

All individual steps are contained in its own sub-folder along with documentation.

Input and intermediate data files can be found in the data folder and some plots can be found in the figures folder.