https://github.com/alisaei/intervene-shiny
An interactive Shiny App for UpSet plots, Venn diagrams and Pairwise heatmaps
Science Score: 13.0%
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Low similarity (8.6%) to scientific vocabulary
Last synced: 9 months ago
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Repository
An interactive Shiny App for UpSet plots, Venn diagrams and Pairwise heatmaps
Basic Info
- Host: GitHub
- Owner: AliSaei
- License: other
- Language: R
- Default Branch: master
- Homepage: https://asntech.shinyapps.io/intervene/
- Size: 1.57 MB
Statistics
- Stars: 0
- Watchers: 0
- Forks: 0
- Open Issues: 0
- Releases: 0
Fork of asntech/intervene-shiny
Created about 7 years ago
· Last pushed about 8 years ago
https://github.com/AliSaei/intervene-shiny/blob/master/
# Intervene #
**An interactive Shiny App for UpSet plots, Venn diagrams and Pairwise heatmaps**
Intervene Shiny App provides an interactive interface for intersection and effective visualization of gene or genomic region sets. Currently, Shiny app does not acccept genomic regions as input, but the text files generated by Interve's [command line interface](https://github.com/asntech/intervene) can be easily uploaded to further explore and customize the plots in an interactive way. Intervene has 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 pariwise intersections as clustered heatmap.
Install the required packages
==============================
Install the following packages:
```R
install.packages(c("shiny","shinydashboard", "devtools", "d3heatmap", "plotly", "gplots", "ggplot2", "gridExtra", "plyr", "UpSetR", "colourpicker", "corrplot", "BBmisc", "readr", "DT"));
source("https://bioconductor.org/biocLite.R"); biocLite(c("RBGL","graph"));
library(devtools); install_github("js229/Vennerable");
```
Online availability
===================
Intervene Shiny App is freely available at
>https://asntech.shinyapps.io/intervene
OR
>https://intervene.shinyapps.io/intervene
Support
========
If you have questions, or found any bug in the program, please write to us at ``aziz.khan[at]ncmm.uio.no``
Cite
====
If you use Intervene please cite us:
>Khan A, Mathelier A. Intervene: a tool for intersection and visualization of multiple gene or genomic region sets. BMC Bioinformatics. 2017;18:287. doi: [10.1186/s12859-017-1708-7](https://doi.org10.1186/s12859-017-1708-7)
Owner
- Name: Ali
- Login: AliSaei
- Kind: user
- Repositories: 2
- Profile: https://github.com/AliSaei