Metaboanalyst Bot (MetaboBot) - hisl6802/ClusteringToolbox GitHub Wiki

Metaboanalyst Bot

In untargeted metabolomics research MetaboAnalyst is a tool that is commonly used. When using MetaboAnalyst researchers often utilize the same pre-processing steps, filtering, etc. Thus, the Metaboanalyst bot here aims to streamline analysis by allowing users to submit a directory of univariate or multi-variate input files that are automatically run through the MetaboAnalyst interface.

Note: Prior to starting bot make sure to remove any Download.zip files in your Downloads folder.

Note: This release is stable as of 2/20/24, and for MetaboAnalyst 6.0 online version. Updates to website may impact bot, we will keep up to date as best as possible.

Filtering Options

• Standard Deviation (40%)
• Interquartile range (IQR) - (40%)
• Median Absolute Deviation (MAD) - (40%)
• Relative Standard Deviation (RSD =SD/mean) - (40%)
• Non-parametric relative standard deviation (MAD/median) - (40%)

Sample Normalization options

• None
• Normalization by sum
• Normalization by median
• Quantile Normalization

Data Transformation options

• None
• Log-base 10
• Square root transformation
• Cube root transformation

Data Scaling options

• None
• Mean centering
• Auto scaling
• Pareto Scaling
• Range Scaling

Analysis options

• Uni (i.e., univariate)
• Multi (i.e., multivariate)

Analyses considered for univariate

• Fold Change Analysis
• T-tests
• Volcano plot
• PCA
• PLS-DA
• Dendrogram
• Heatmaps

Analyses considered for multivariate

• ANOVA (one-way)
• PCA
• PLS-DA
• Dendrogram
• Heatmaps

Downloading and saving

The bot will download and the analyses performed, upon downloading the bot will rename the folder and save the directory select upon starting the UI.