The JEM-EUSO Atmospheric Monitoring system consists of a bi-spectral Infrared Camera and a LIDAR device that are being fully designed under space qualification to fulfil the scientific requirements of the JEM-EUSO mission. An understanding of the atmospheric conditions in the Field of View of the main telescope is one of the most important tasks for a mission which aims to detect Ultra-High Energy Cosmic Rays (UHECR) and Extremely-High Energy Cosmic Rays (EHECR) from Space using the Earth's atmosphere as calorimeter. In this work the simulation and reconstruction algorithms in the Off line framework are explained. The relevant modules developed for the calibration, simulation, and reconstruction tasks of the images from the infrared camera including its configuration options are discussed and the status of the JEM-EUSO infrared camera modules as implemented in Off line is described.