The aim of the Prediction tool is to take advantage of the signalling circuit activities to distinguish between phenotypes. Depending on the study design, we can perform a two group comparison or a correlation with a continuous variable.

HiPathia Prediction uses the signalling value of mechanism-based biomarkers to compute a SVM prediction model with cross-validation. Moreover, previously obtained models could be used to predict the phenotype of new samples.

The tool can be accessed from the main menu bar, by clicking on the Prediction button, see Workflow for further information.

The main page of a the tool is its filling in form. This form includes all the information and parameters that the tool needs to process a job. The form is divided in different panels:

• Type
• Input data
• Design data
• Species
• Parameters
• Pathways
• Job information

Once the form has been filled in, press the Launch job button to launch a job. Your job will be listed in the My jobs panel, see Workflow for further information.

The results page of the Prediction tool includes different output results. You can download any table or image showed in the results page by clicking on the name right before it. You can also download the pathway and function matrices by clicking on Path values.

The results are divided in different panels:

• Input Parameters
• Path values: You can download the matrix of path values by clicking on Path values.
• Prediction Model
• Pathway viewer: Only when selecting filter paths option.