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R is used heavily in the bioinformatics community for processing, analyzing, and visualizing biological sequence data due to the strong support for data exploration and analysis. One common complaint about R is its lack of speed relative to other languages, which have to do with properties of the R kernel (Sridharan, 2015). A solution to this is to rewrite key functions in C++ instead, then use Rcpp (Eddelbuettel & Balamuta, 2018) to interface with R. Many packages in R are sped up with C++ code: as of November 2018, out of 13525 packages on CRAN, 1493 of those use Rcpp. On Bioconductor (Huber et al., 2015), a repository specifically for bioinformatics packages, there is a similar proportion of packages using Rcpp: 150 out of 1649.

RSeqAn: Headers and wrappers for the SeqAn library in R