Scientific workflows allow scientists to easily model and express the entire data processing steps, typically as a directed acyclic graph (DAG). These scientific workflows are made of a collection of tasks that usually take a long time to compute and that produce a considerable amount of intermediate datasets. Because of the nature of scientific exploration, a scientific workflow can be modified and re-run multiple times, or new scientific workflows are created that might make use of past intermediate datasets. Storing intermediate datasets has the potential to save time in computations. Since storage is limited, one main problem that needs a solution is determining which intermediate datasets need to be saved at creation time in order to minimize the computational time of the workflows to be run in the future. This research thesis proposes the design and implementation of Pingo, a system that is capable of managing the computations of scientific workflows as well as the storage, provenance and deletion of intermediate datasets. Pingo uses the history of workflows submitted to the system to predict the most likely datasets to be needed in the future, and subjects the decision of dataset deletion to the optimization of the computational time of future workflows.