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TheLook@NanoSIMS (short LANS) Matlab module written by LubosPolerecky (Polerecky L., Adam B., Milucka J., Musat N., Vagner T. andKuypers M. M. M. (2012)Look@NanoSIMS - a tool for the analysis ofnanoSIMS data in environmental microbiology. Environmental Microbiology14, 1009–1023.) makes it easy to process NanoSIMS data and draw regionsof interest (ROIs). Thelans2r package provides a convenientinterface to import ion maps and ROI data generated by LANS forprocessing and plotting in R/RMarkdown. Additionally, it can processNanoSIMS tuning (HMR) files.

# Install the latest release of this package from CRANinstall.packages("lans2r")# Or the the development version directly from GitHub using devtools:# install.packages("devtools")devtools::install_github('KopfLab/lans2r')

Once installed, load the package with:

library(lans2r)

A concise overview demonstrating the functionality of thelans2rpackage is provided in themainvignette for thepackage, which can also be accessed from within R by callingvignette("lans2r"). Additional vignettes provide details on extendedfunctionality and can be accessed easily by browsing the packagevignettes from within R callingbrowseVignettes("lans2r"). For detailson individual functions, please consult the package help(e.g. ?load_LANS_summary).

library(dplyr)# use of %>% and filterlibrary(lans2r)# the lans2r package# load two of the data sets supplied with lans2rload_LANS_maps (analysis= c("analysis1","analysis2"),base_dir= system.file("extdata","nanosims_data",package="lans2r")) %>%# focus on the NC ions  filter(variable%in% c("14N12C","15N12C")) %>%# plot the ion maps normalized by ion counts for each ion  plot_maps(normalize=TRUE,draw_ROIs=FALSE)