AllInOne Pre-processing: A comprehensive preprocessing framework in plant field phenotyping

Abstract

AllInOne Pre-processing is an innovative open-source, R-Shiny user interface package designed to facilitate the swift and effective preprocessing of plant phenotypic data. AllInOne Pre-processing incorporates a variety of statistical methods for data preprocessing, including: identifying missing patterns, imputing missing data using various imputation methods, visualizing data (box, violin, density, and scatter plot), detecting and amending outliers using quantile and Cook’s distance methods, estimating correlations, normalizing the data, estimating heritability, conducting spatial analysis, and calculating best linear unbiased prediction (BLUP) and estimator (BLUE). In general, AllInOne Pre-processing streamlines the preprocessing of phenotypic data, enabling users who lack programming knowledge to swiftly and accurately prepare their data for further analyses.

Keywords

• Imputing missing data
• Normalization
• Outlier detection
• Visualization
• Variance analyses