Merge branch 'master' of https://github.com/compbiocore/RSeqAn

README.md

@@ -22,13 +22,19 @@ Don't forget to set the C++14 compiler flags if you do this!
 
 ## Installation
 
-We recommend installing the release version [through Bioconductor](https://bioconductor.org/packages/release/bioc/html/RSeqAn.html). Instructions are provided on their page.
+ * We recommend installing the release version [through Bioconductor](https://bioconductor.org/packages/release/bioc/html/RSeqAn.html), especially if you are running R on Windows. Instructions are provided on their page.
 
-If you have `devtools`, then the development version can be installed from here by running:
+ * Version 1.3.1 can also be installed [through Bioconductor](http://bioconductor.org/packages/devel/bioc/html/RSeqAn.html) (for now, Bioconductor has a separate release cycle), downloaded as [a tagged release](https://github.com/compbiocore/RSeqAn/releases/tag/v1.3.1), or installed with `devtools` by running:
 ```r
-devtools::install_github("compbiocore/RSeqAn")
+devtools::install_github("compbiocore/RSeqAn", ref="v1.3.1")
 ```
-The development version contains `Rcpp::as` and `Rcpp::wrap` functions for `CharString`.
+This version contains `Rcpp::as` and `Rcpp::wrap` functions for `CharString` and is the one submitted to the [Journal of Open Source Software](https://joss.theoj.org/).
+
+ * The development version can be installed with `devtools` by running:
+```r
+devtools::install_github("compbiocore/RSeqAn", ref="devel")
+```
+This version contains additional wrappers, though we cannot guarantee that they will work for you.
 
 ## Author
 

paper/paper.md

@@ -3,7 +3,7 @@ title: 'RSeqAn: Headers and wrappers for the SeqAn library in R'
 author:
   - August Guang
 authors:
-- affiliation: 1,2
+- affiliation: "1,2"
   name: August Guang
   orcid: 0000-0003-0872-7098
 tags:
@@ -16,8 +16,8 @@ affiliations:
   name: Center for Computation and Visualization, Brown University, Providence, Rhode Island, United States of America
 - index: 2
   name: Center for Computational Biology of Human Disease, Brown University, Providence, Rhode Island, United States of America
-- date: 5 February 2019
-- bibliography: paper.bib
+date: 5 February 2019
+bibliography: paper.bib
 ---
 
 Summary