RT Journal Article
SR Electronic
T1 KimLabIDV: Application for Interactive RNA-Seq Data Analysis and Visualization
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 053348
DO 10.1101/053348
A1 Qin Zhu
A1 Stephen A Fisher
A1 Hannah Dueck
A1 Sarah Middleton
A1 Mugdha Khaladkar
A1 Young-Ji Na
A1 Junhyong Kim
YR 2016
UL http://biorxiv.org/content/early/2016/05/13/053348.1.abstract
AB Summary We developed the KimLabIDV package (IDV) to facilitate fast and interactive RNA-Seq data analysis and visualization. IDV supports routine analysis including differential expression analysis, correlation analysis, dimension reduction, clustering and classification. With the graphical user interface IDV provides, users can easily obtain statistical test results and publication-quality graphs with their data. IDV further supports program state saving and report generation, so that all analysis can be saved, shared and reproduced.Availability and implementation IDV is implemented in R and is distributed as an R package. It is developed based on the Shiny framework, multiple R packages and a collection of scripts written by members of Junhyong Kim’s Lab at University of Pennsylvania. IDV supports any system that has R and a modern web browser installed. It can be downloaded from Kim Lab Software Repository (http://kim.bio.upenn.edu/software).Contact junhyong{at}upenn.edu