This study aims to develop and validate a convolutional neural network for automatic segmentation of the spinal cord (SC) and intramedullary injury in acute blunt SC trauma patients. Using image augmentation of the axial slice cross section and U-net architecture, we were able to achieve a dice coefficient for SC segmentation of 0.92. The same network architecture was also able to identify areas of intramedullary injury. This is the first study to accurately segment the acute blunt trauma SC. Automatic segmentation of the SC in this population makes automatic biomarker analysis and quantitative prognostication of outcomes possible for SC injury.