SeqAn headers for R
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README.md

RSeqAn

SeqAn Headers for R

Build Status codecov License

Overview

This package provides R with access to SeqAn v2.4 header files. SeqAn is an open source C++ library of efficient algorithms and data structures for the analysis of sequences with the focus on biological data.

Usage

RSeqAn can be used via the LinkingTo: field in the DESCRIPTION field of an R package. Note that the compiler will need to compile as C++14. This can be done in R as Sys.setenv("PKG_CXXFLAGS"="-std=c++14").

Installation

We recommend installing the release version through Bioconductor. Instructions are provided on their page.

If you have devtools, then the development version can be installed from here by running:

devtools::install_github("compbiocore/RSeqAn")

This version contains Rcpp::as and Rcpp::wrap functions for CharString.

Author

August Guang

Release history

See NEWS for release history.

Citation

To cite this package from within R, enter citation("RSeqAn"). Citation is also provided below: Guang A (2018). RSeqAn: R SeqAn. R package version 1.2.0.

Please do not forget to cite SeqAn if you use this package in your acedemic work, even if only in auxiliary tools or pipelines: https://doi.org/10.1016/j.jbiotec.2017.07.017