seninfobio/crossr

Compare transcriptomes from different species.

Crossr

Overview

Crossr is set of functions and a workflow that can be useful for quantitative comparison of transcriptomic data from different species.

Crossr is under development and comes with no warranty.

Install

In order to install crossr from Github you must first install the devtools package in R.

To install devtools from CRAN, type:

install.packages("devtools")

Some images in crossr's Vignette require the ggplot2 and pheatmap packages. To build the Vignette, those packages must be installed in R. ggplot2 is also needed for other plotting functionalities of crossr.

If you haven't installed ggplot2 and pheatmap already, you can install them by typing:

install.packages("ggplot2", "pheatmap")

Then you can use devtools to install crossr by typing:

devtools::install_github("othomantegazza/crossr", build_vignettes = TRUE)

By setting build_vignettes = TRUE (the default is FALSE), the installation will take a little longer but in the process you will build the Vignette that explains how to use crossr.

Use crossr

First load crossr with:

library(crossr)

The workflow and usage of crossr is documented in the vignette, that can be accessed with:

vignette("quick_overview", "crossr")