README.md

In HaidYi/DASC: Detecting hidden batch factors through data adaptive adjustment for biological effects

DASC

Status: Travis CI

Overview

DASC is an R package used for identifying batches and classifying samples into different batches in a high dimensional gene expression dataset. The batch information can be further used as a covariate in conjunction with other variables of interest among standard bioinformatics analysis like differential expression analysis.

Installation

Dependencies

Before installing the package, please make sure the prerequisite packages described in DESCRIPTION file have been installed successfully.

To install the DASC package, start the terminal and enter:

On linux/MacOs

git clone https://github.com/HaidYi/DASC.git
R CMD build DASC
R CMD INSTALL DASC_*.tar.gz

Usage

For concrete usages, please refer the .html vignettes in inst/doc file.

Citation info

If you use DASC for your analysis, please cite our paper as here below.

@article{Yi2018Detecting,
    title={Detecting hidden batch factors through data-adaptive adjustment for biological effects},
    author={Haidong Yi and
            Ayush T. Raman and
            Han Zhang and
            Genevera I. Allen and
            Zhandong Liu},
    journal={Bioinformatics},
    volume={34},
    number={7},
    pages={1141--1147},
    year={2018},
}

Questions ?

If you have any questions or issues? Please ask in the Issues or email me directly at [e-mail]

HaidYi/DASC documentation built on May 3, 2019, 6:42 p.m.