Software implementation and overview

APOSTL is a freely available, Galaxy-integrated software suite and analysis pipeline for reproducible, interactive analysis of AP-MS data. The software is distributed as a repository containing individual tools in the Galaxy ToolShed, which allows for customizable workflows. APOSTL consists of a workflow integrated across two analysis environments: a static Galaxy environment and an interactive data analysis environment rendered either within Galaxy or in a separate browser tab (Figure 1). In addition, we have successfully integrated SAINTexpress into Galaxy. Within the static environment, users can process their data for SAINTexpress analysis, query known PPI and generate clustered dot plots¹⁵. Within the interactive data analysis environment, APOSTL uses the R package, Shiny, to provide a user friendly GUI and provides interactive visualization of both R and JavaScript in order to analyze SAINTexpress outputs.

A pipeline for identifying and visualizing high confidence protein interactions.