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Food quality control is an important task in the agricultural domain at the postharvest stage for avoiding food losses. The latest achievements in image processing with deep learning (DL) and computer vision (CV) approaches provide a number of effective tools based on the image colorization and image-to-image translation for plant quality control at the postharvest stage. In this article, we propose the approach based on Generative Adversarial Network (GAN) and Convolutional Neural Network (CNN) techniques to use synthesized and segmented VNIR imaging data for early postharvest decay and fungal zone predictions as well as the quality assessment of stored apples. The Pix2PixHD model achieved higher results in terms of VNIR images translation from RGB (SSIM = 0.972). Mask R-CNN model was selected as a CNN technique for VNIR images segmentation and achieved 58.861 for postharvest decay zones, 40.968 for fungal zones and 94.800 for both the decayed and fungal zones detection and prediction in stored apples in terms of F1-score metric. In order to verify the effectiveness of this approach, a unique paired dataset containing 1305 RGB and VNIR images of apples of four varieties was obtained. It is further utilized for a GAN model selection. Additionally, we acquired 1029 VNIR images of apples for training and testing a CNN model. We conducted validation on an embedded system equipped with a graphical processing unit. Using Pix2PixHD, 100 VNIR images from RGB images were generated at a rate of 17 frames per second (FPS). Subsequently, these images were segmented using Mask R-CNN at a rate of 0.42 FPS. The achieved results are promising for enhancing the food study and control during the postharvest stage.