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ECplot: an online tool for making standardized plots from large datasets for bioinformatics publications.

Alex Chun-Hong Fok¹, Sunny Siu-Nam Mok, Sau Dan Lee

¹Department of Computer Science and Engineering, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong.

Bioinformatics (Oxford, England)

|January 28, 2014

Summary

ECplot is a new online tool for creating publication-quality charts from large datasets. It efficiently generates various bioinformatics plots, supporting reproducible research through XML-based data and style management.

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Area of Science:

Bioinformatics
Data Visualization
Computational Biology

Background:

Generating publication-quality figures from large datasets can be challenging.
Existing tools may lack flexibility or efficiency for complex bioinformatics data.

Purpose of the Study:

To introduce ECplot, an online tool designed for plotting charts from large datasets.
To provide a flexible and efficient solution for bioinformatics data visualization.

Main Methods:

ECplot supports various common bioinformatics chart types.
It utilizes Extensible Markup Language (XML) for data and style management.
Benchmarking demonstrated efficient plotting of large datasets (e.g., 67,000 data points).

Main Results:

ECplot successfully generated complex charts, including Box-and-Whisker plots, rapidly.
The tool allows easy common formatting and advanced customization via XML.
Separate storage of data and styles enables template creation and application.

Conclusions:

ECplot facilitates the creation of publication-ready figures from large datasets.
Its XML-based approach enhances reproducibility and accessibility of published results.
The tool streamlines the visualization process in bioinformatics research.