# scDD: An R package to identify differentially distributed genes in scRNA-seq Version 0.99.3 of R Package 'scDD' (accepted to Bioconductor). Note that this version requires the 3.4.0 version of R (current development version), and now uses ```summarizedExperiment``` objects instead of ```ExpressionSet``` objects. To access previous versions of the package (including 1.1.0 as used in the [Genome Biology publication] (https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-1077-y), see the [Releases page](https://github.com/kdkorthauer/scDD/releases)). The Bioconductor landing page is [http://bioconductor.org/packages/devel/bioc/html/scDD](http://bioconductor.org/packages/devel/bioc/html/scDD.html). To install, make sure you have development version of Bioconductor (3.5), and use the following commands: ```R ## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("scDD") ``` For examples and tips on using the package, please see the vignette PDF [here](http://bioconductor.org/packages/devel/bioc/vignettes/scDD/inst/doc/scDD.pdf) which you can alternatively bring up by typing ```R browseVignettes("scDD") ``` after installing and loading the package into R. Please send bug reports and feature requests by sending a message to Bioconductor Support at [https://support.bioconductor.org](https://support.bioconductor.org) or by opening a new issue on [this page](https://github.com/kdkorthauer/scDD/issues) Please cite the following publication if you use scDD in your work: > Korthauer KD, Chu LF, Newton MA, Li Y, Thomson J, Stewart R, Kendziorski C. A statistical approach for identifying differential distributions in single-cell RNA-seq experiments. Genome Biology. 2016 Oct 25;17(1):222. [https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-1077-y] (https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-1077-y) You can obtain this citation within R by typing ```R citation("scDD") ``` Note: The package was built using the development version of R (3.4.0, 2016-10-26 r71594). If you are unable to install this version of R on your system due to admin policies, visit the [develop](https://github.com/kdkorthauer/scDD/tree/develop) branch of scDD, which contains instructions to install a version of scDD though GitHub that has the R devel version dependency removed.