VolcaNoseR - Exploring volcano plots

Aesthetics

Size of the datapoints

Visibility of the data

Selection & Annotation of hits

Fold Change threshold:

Significance threshold:

Use thresholds to annotate:

Criterion for ranking hits:

Number of top hits (0 to hide):

User selected hits:

Show table with hits

Hide labels in the plot

Color (Unchanged,Increased,Decreased)

Grey, Red, Blue

Grey, Blue, Green

Grey, Cyan, Purple

User defined

List of names or hexadecimal codes

Dark Theme

Transformation & Scaling

Rotate plot 90 degrees

Add gridlines

Change scale

Range x-axis (min,max)

Range y-axis (min,max)

Log10 scale on y-axis

Plot height (# pixels):

Plot width (# pixels):

Labels

Add title

Title:

Change axis labels

X-axis:

Y-axis:

Change font size

Plot title:

Axis titles:

Axis labels:

Labels of hits:

Add legend

iPlot

Data upload

Example data 1

Example data 2

Upload file (CSV, text, excel)

URL (CSV files only)

Data of differentially expressed genes in livers of mice on a high-fat-high-cholesterol diet - from figure 4C of Becares et al (2019): https://doi.org/10.1016/j.celrep.2018.12.094

Data of potential interactors of Cdc42 - from Figure 9A of Gillingham et al (2019): https://doi.org/10.7554/eLife.45916.001

Browse...

Select Delimiter (for text file):

Select sheet (for excel workbook):

URL

Select X & Y variables

X-axis; Effect (fold change)

Y-axis; Significance (p-value)

Select column with names

About

There are currently

session(s) connected to this app.

Find our other dataViz apps at:

https://huygens.science.uva.nl/

Data as provided

Volcano Plot

Download pdf-file Download png-file

Top hits (based on distance from origin)

About

About VolcaNoseR

The VolcaNoseR web app is a dedicated tool for exploring and plotting Volcano Plots. Users can explore the data with a pointer (cursor) to see information of individual datapoints. The threshold for the effect size (fold change) or significance can be dynamically adjusted. The plot can be annotated to show genes/proteins based on their top ranking or based on user input. More details about the VolcaNoseR app can be found in our preprint

The plot can be saved as a PNG file or a PDF file, which can be opened and edited with Adobe Illustrator to allow for fine adjustments of the lay-out.

Contact

VolcaNoseR is created and maintained by Joachim Goedhart and Martijn Luijsterburg
Bug reports and feature requests can be communicated in several ways:

Github: https://github.com/JoachimGoedhart/VolcaNoseR/issues
Twitter: @joachimgoedhart
Email: j.goedhart@uva.nl

Source

Source code is available at github/JoachimGoedhart
Please cite this preprint if you use the app: "VolcaNoseR - a web app for creating, exploring and sharing volcano plots" - doi: 10.1101/2020.05.07.082263

Credits

There are several Shiny apps for Volcano plots that have served as a source of inspiration:

What else?

Find our other dataViz apps at https://huygens.science.uva.nl