VST-DAVis:一个R Shiny应用程序和Web浏览器用于空间转录学数据分析和可视化
Sankarasubramanian Jagadesan1, Chittibabu Guda1,2
1Department of Genetics, Cell Biology and Anatomy, 985805 Nebraska Medical Center, University of Nebraska Medical Center, Omaha, NE 68198-5805, United States.
Bioinformatics advances
|February 5, 2026
概括
Visium HD空间转录学数据分析和可视化 (VST-DAVIS) 是一个用户友好的R Shiny应用程序,用于分析空间转录学数据. 它为研究人员提供了全面的工具,简化了单个或多个样本的复杂分析和可视化.
科学领域:
- 空间转录组学 空间转录组学
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
背景情况:
- 像10x Genomics Visium HD这样的空间转录组技术可以生成复杂的数据集.
- 分析这些数据集需要专门的生物信息专业知识和工具.
- 现有的工具可能缺乏用户友好性或全面的分析能力.
研究的目的:
- 开发一个名为VST-DAVIS的交互式R Shiny应用程序,用于直观的空间转录学数据分析.
- 为研究人员提供一个用户友好的,端到端的解决方案,包括那些没有编程专业知识的人.
- 为了支持单个和多个样本分析进行比较研究.
主要方法:
- 开发了VST-DAVIS作为一个R Shiny应用程序和Web浏览器.
- 集成流行的R包 (Seurat,Monocle3,CellChat,hdWGCNA) 用于各种分析任务.
- 设计了一个精简的图形界面,用于直观的数据处理和可视化.
主要成果:
- VST-DAVIS能够从质量控制到网络重建,进行全面的空间转录学分析.
- 该应用程序支持各种输入格式,并输出高质量的图形.
- 它有助于对多个样本和生物条件进行比较分析.
结论:
- VST-DAVIS使得先进的空间转录学数据分析可供更广泛的研究社区使用.
- 该工具增强了Visium HD数据的可用性,用于具有不同技术技能的研究人员.
- 它为探索空间基因表达,细胞通信和共同表达网络提供了一个强大的平台.
相关概念视频
01:12Analysis of Population Pharmacokinetic Data
758
Analysis of population pharmacokinetic data involves studying the behavior of drugs within diverse populations to understand their pharmacokinetic parameters. Traditional pharmacokinetic methods typically involve collecting samples from a few individuals and estimating these parameters. While these methods are commonly used, they have limitations in capturing the variability in drug response among individuals or heterogeneous populations. Population pharmacokinetics is employed to address these...
758
01:13Overview of Microsoft Excel as a Data Analysis Tool
1.6K
Microsoft Excel is a cornerstone tool for data analysis and statistical operations, offering a wide array of functionalities to manage, analyze, and visualize data efficiently. Recognized for its versatility, Excel facilitates the performance of basic to complex statistical operations, serving as an indispensable asset for analysts, researchers, and students alike. Excel's significance in data analysis emanates from its spreadsheet environment, where data can be organized in rows and...
1.6K
01:17Performing a Simple Data Analysis using MS-Excel Function
1.1K
Microsoft Excel offers a suite of functions and tools ideal for statistical analysis, making it accessible to students and researchers. This article outlines fundamental Excel functions pivotal for data analysis.
SUM: This function calculates the total sum of a range of values. It's the foundation for aggregating data, essential for determining overall trends and totals in datasets.
AVERAGE: It computes the mean value of a given set of numbers, providing a quick insight into the central...
SUM: This function calculates the total sum of a range of values. It's the foundation for aggregating data, essential for determining overall trends and totals in datasets.
AVERAGE: It computes the mean value of a given set of numbers, providing a quick insight into the central...
1.1K
01:12Statistical Software for Data Analysis and Clinical Trials
1.6K
Statistical software is pivotal in data analysis and clinical trials by providing tools to analyze data, draw conclusions, and make predictions. These software packages range from simple data management applications to complex analytical platforms, supporting various statistical tests, models, and simulation techniques. Their significance lies in their ability to handle vast amounts of data with precision and efficiency, enabling researchers to validate hypotheses, identify trends, and make...
1.6K
00:59Model-Independent Approaches for Pharmacokinetic Data: Noncompartmental Analysis
335
Noncompartmental analyses offer an alternative method for describing drug pharmacokinetics without relying on a specific compartmental model. In this approach, the drug's pharmacokinetics are assumed to be linear, with the terminal phase log-linear. This assumption allows for simplified analysis and interpretation of the drug's behavior in the body.
One important characteristic of noncompartmental analyses is that drug exposure increases proportionally with increasing doses. This...
One important characteristic of noncompartmental analyses is that drug exposure increases proportionally with increasing doses. This...
335
01:11How Data are Classified: Categorical Data
44.8K
A variable, usually notated by capital letters such as X and Y, is a characteristic or measurement that can be determined for each member of a population. Data are the actual values of variables. They may be numbers, or they may be words. Datum is a single value.
Data are classified based on whether they are measurable or not. Categorical data cannot be measured; instead, it can be divided into categories. For example, if Y denotes a person's party affiliation, some examples of Y include...
Data are classified based on whether they are measurable or not. Categorical data cannot be measured; instead, it can be divided into categories. For example, if Y denotes a person's party affiliation, some examples of Y include...
44.8K