SimpleViz: A user-friendly, web-based tool for publication-ready data visualization in bioinformatics

IF 3.7 3区生物学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY

Molecules and Cells Pub Date : 2025-05-08 DOI:10.1016/j.mocell.2025.100222

Byeong Seob Oh , Juhee Kim , Minjeong Kwon , Jiwon Bang , Kwang-Jun Lee , Eun-Jin Lee , Yong-Joon Cho

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引用次数: 0

Abstract

Large-scale datasets are central to bioinformatics research, creating a demand for intuitive visualization tools that transform complex data into accessible graphics. Existing visualization software often comes with high costs or requires coding expertise, limiting accessibility for many researchers. To address this gap, we introduce SimpleViz, a free, web-based platform that enables the creation of professional-quality figures without the need for programming skills. SimpleViz offers gene-level analysis of RNA-seq data and core visualization types such as box/violin/dot plots, volcano plots, principal component analysis plots, and heatmaps, with extensive customization options for detailed adjustments and built-in statistical comparisons. Developed on a Shiny interface, SimpleViz simplifies the process of data upload, visualization generation, and customization, ensuring that users can produce tailored visuals suited for publication. With plans for continuous improvement based on user feedback, SimpleViz provides an adaptable, accessible solution that meets evolving data analysis needs in biomedical research.

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SimpleViz：一个用户友好的，基于web的工具，用于生物信息学中出版就绪的数据可视化。

大规模数据集是生物信息学研究的核心，它创造了对直观可视化工具的需求，这些工具可以将复杂的数据转换为可访问的图形。现有的可视化软件通常成本很高，或者需要编码专业知识，限制了许多研究人员的可访问性。为了解决这一差距，我们推出了SimpleViz，这是一个免费的基于web的平台，可以在不需要编程技能的情况下创建专业质量的图形。SimpleViz提供RNA-seq数据的基因水平分析和核心可视化类型，如盒/小提琴/点阵图，火山图，PCA图和热图，具有广泛的定制选项，可进行详细调整和内置统计比较。SimpleViz基于Shiny界面开发，简化了数据上传、可视化生成和自定义的过程，确保用户可以生成适合发布的定制视觉效果。SimpleViz计划根据用户反馈进行持续改进，提供了一个适应性强、易于访问的解决方案，以满足生物医学研究中不断发展的数据分析需求。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Molecules and Cells 生物-生化与分子生物学

CiteScore

6.60

自引率

10.50%

发文量

审稿时长

2.3 months

期刊介绍： Molecules and Cells is an international on-line open-access journal devoted to the advancement and dissemination of fundamental knowledge in molecular and cellular biology. It was launched in 1990 and ISO abbreviation is "Mol. Cells". Reports on a broad range of topics of general interest to molecular and cell biologists are published. It is published on the last day of each month by the Korean Society for Molecular and Cellular Biology.