Notice: This repository is deprecated!

Due to file size restrictions of GitHub, we moved HumanPhysioSpace to a GitLab repository, hosted by RWTH Aachen university, and will continue support and development there.

HumanPhysioSpace

HumanPhysioSpace is a R data package which provides physiological spaces to be used with the package PhysioSpaceMethods for in depth analysis of human gene expression data.

Table of Contents

Installation Instructions
License
Usage Instructions
Test Environments

Installation Instructions

It is recommended to install PhysioSpaceMethods before HumanPhysioSpace. More information about how to install PhysioSpaceMethods is provided in https://github.com/JRC-COMBINE/PhysioSpaceMethods.

Installing via Devtools (Recommended method):

Easiest way to install HumanPhysioSpace is via Devtools. After installing Devtools from cran, you can install HumanPhysioSpace by:

devtools::install_github(repo = "JRC-COMBINE/HumanPhysioSpace", build_vignettes = TRUE)

Alternative installation methods (Manual download):

In case you encountered any problem while installing HumanPhysioSpace, you can download the repository first and install the package from downloaded local files. In your terminal, first clone the repository in your desired repository:

cd [Your desired directory]
git clone https://github.com/JRC-COMBINE/HumanPhysioSpace.git

Then install the downloaded package using Devtools:

R -e "devtools::install_local('./HumanPhysioSpace/', build_vignettes = TRUE)"

License

Distributed under GNU General Public License v3.0. See the accompanying license file or the copy at https://www.gnu.org/licenses/gpl-3.0.html.

Usage Instructions

HumanPhysioSpace can map user samples inside a physiological space, calculated prior from a compendium of known samples. We demonstrated how to use this package in a vignette which you can access via:

browseVignettes(package = "HumanPhysioSpace")

Test Environments

The package was tested with R 3.4 on Windows 10, Mac OS X and Linux (CentOS 7.4).