Deep Learning (DL) has the potential to optimize machine learning in both the scientific and clinical communities. However, greater expertise is required to develop DL algorithms, and the variability of implementations hinders their reproducibility, translation, and deployment. Here we present the community-driven Generally Nuanced Deep Learning Framework (GaNDLF), with the goal of lowering these barriers. GaNDLF makes the mechanism of DL development, training, and inference more stable, reproducible, interpretable, and scalable, without requiring an extensive technical background. GaNDLF aims to provide an end-to-end solution for all DL-related tasks in computational precision medicine. We demonstrate the ability of GaNDLF to analyze both radiology and histology images, with built-in support for k-fold cross-validation, data augmentation, multiple modalities and output classes. Our quantitative performance evaluation on numerous use cases, anatomies, and computational tasks supports GaNDLF as a robust application framework for deployment in clinical workflows.

Purpose: To utilize high-resolution quantitative CT (QCT) imaging features for prediction of diagnosis and prognosis in fibrosing interstitial lung diseases (ILD). Approach: 40 ILD patients (20 usual interstitial pneumonia (UIP), 20 non-UIP pattern ILD) were classified by expert consensus of 2 radiologists and followed for 7 years. Clinical variables were recorded. Following segmentation of the lung field, a total of 26 texture features were extracted using a lattice-based approach (TM model). The TM model was compared with previously histogram-based model (HM) for their abilities to classify UIP vs non-UIP. For prognostic assessment, survival analysis was performed comparing the expert diagnostic labels versus TM metrics. Results: In the classification analysis, the TM model outperformed the HM method with AUC of 0.70. While survival curves of UIP vs non-UIP expert labels in Cox regression analysis were not statistically different, TM QCT features allowed statistically significant partition of the cohort. Conclusions: TM model outperformed HM model in distinguishing UIP from non-UIP patterns. Most importantly, TM allows for partitioning of the cohort into distinct survival groups, whereas expert UIP vs non-UIP labeling does not. QCT TM models may improve diagnosis of ILD and offer more accurate prognostication, better guiding patient management.