Methods for the development and integration of multiple apparatuses and methods for achieving administration of stem cell therapies include precision manufacturing of tissue scaffolds and/or bioreactor substrates. The nano/microscale fiber material extrusion typifying the electrospinning process is married with the fiber alignment and layering characteristic of an additive manufacturing process. The method generates porous fibrous 3-D meshes with precision controlled structures from biopolymer melts and solutions and gels, blends, and suspensions with and without cells. A method of tracking the migration histories and shapes of stem cells on scaffold surfaces relies on immunofluorescent imaging and automated algorithms based on machine learning. The combination of the precision manufacturing method and the method of cell tracking and cell shape statistics, along with understanding of the intimate relationship between the cell shape/phenotype and scaffold architecture leads to an integrated method for cultivating and harvesting cells having desired phenotypes.