HiPathia can be used mainly in two different ways:

• Differential signaling allows us to see how cell signaling changes in different conditions.
• Prediction allows us to train a prediction test and test it with different data.

HiPathia is able to integrate different technologies to produce an accurate result.

HiPathia allows us to compute a signal value for each signaling path and each of our data samples. Therefore, it allows us to compare the signal value:

• Between two groups, in order to see which signaling paths change and how, or
• With a continuous value, giving us the correlation of each signaling path with this variable.

HiPathia is able to integrate variant files in order to compute a more accurate estimation of the samples expression. This integration can be done in order to:

• Have a more precise expression profile of the samples we are comparing, or
• Check the effect on the signaling pathways of the mutations in the genome.