RT Journal Article
SR Electronic
T1 Intervene: a tool for intersection and visualization of multiple gene or genomic region sets
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 109728
DO 10.1101/109728
A1 Aziz Khan
A1 Anthony Mathelier
YR 2017
UL http://biorxiv.org/content/early/2017/02/18/109728.abstract
AB Summary A common task for scientists relies on comparing lists of genes or genomic regions derived from high-throughput sequencing experiments. While several tools exist to intersect and visualize sets of genes, similar tools dedicated to the visualization of genomic regions sets are currently limited. To fill this gap, we have developed Intervene, which provides an easy and automated interface for effective intersection and visualization of genomic region sets, thus facilitating their analysis and interpretation. Intervene contains three modules: venn to generate Venn diagrams of up-to 6 sets, upset to generate UpSet plots of more than 3 sets, and pairwise to compute and visualize intersections of genomic sets as clustered heatmap.Availability and Implementation Intervene is implemented in Python and R and is freely available at https://bitbucket.org/CBGR/intervene with a Shiny App at https://asntech.shinyapps.io/interveneContact aziz.khan{at}ncmm.uio.no, anthony.mathelier{at}ncmm.uio.no