README.md

In cma2015/RAP: Rank aggregation-based data fusion for gene prioritization

RAP

RAP is a rank aggregation-based data fusion approach for gene prioritization in plants. It can be used to perform the gene prioritization in Arabidopsis thaliana and 28 non-plant species. The input of RAP are a set of genes of interest and the network-based gene prioritization results from AraNet v2 system, while the output are the ranks of candidate genes. RAP has been successfully applied to prioritize flowering-time genes in Arabidopsis. The genome-wide experimental results indicate that RAP can be used as a complement to the network-based gene prioritization algorithm (e.g., AraNet v2) for accurately prioritizing candidate genes underlying biological processes or agricultural traits.

Installation

• Note: R package "devtools" is required to install RAP package from github.

require("devtools")
install_github("cma2015/RAP")

How to use

Please refer to https://github.com/cma2015/RAP/blob/master/RAP-Reference-Manual.pdf for details about each function.

Contact

If any suggestions are available, feel free to contact: Zhai Jingjing([e-mail])

Citation

Zhai, J., Tang, Y., Yuan, H., Wang, L., Shang, H., & Ma, C. (2016). A meta-analysis based method for prioritizing candidate genes involved in a pre-specific function. Frontiers in plant science, 7, 1914.

cma2015/RAP documentation built on Aug. 18, 2019, 8:02 p.m.