Explainable Artificial Intelligence (xAI) is an established field with a vibrant community that has developed a variety of very successful approaches to explain and interpret predictions of complex machine learning models such as deep neural networks. In this article, we briefly introduce a few selected methods and discuss them in a short, clear and concise way. The goal of this article is to give beginners, especially application engineers and data scientists, a quick overview of the state of the art in this current topic. The following 17 methods are covered in this chapter: LIME, Anchors, GraphLIME, LRP, DTD, PDA, TCAV, XGNN, SHAP, ASV, Break-Down, Shapley Flow, Textual Explanations of Visual Models, Integrated Gradients, Causal Models, Meaningful Perturbations, and X-NeSyL.

The main impetus for the global efforts toward the current digital transformation in almost all areas of our daily lives is due to the great successes of artificial intelligence (AI), and in particular, the workhorse of AI, statistical machine learning (ML). The intelligent analysis, modeling, and management of agricultural and forest ecosystems, and of the use and protection of soils, already play important roles in securing our planet for future generations and will become irreplaceable in the future. Technical solutions must encompass the entire agricultural and forestry value chain. The process of digital transformation is supported by cyber-physical systems enabled by advances in ML, the availability of big data and increasing computing power. For certain tasks, algorithms today achieve performances that exceed human levels. The challenge is to use multimodal information fusion, i.e., to integrate data from different sources (sensor data, images, *omics), and explain to an expert why a certain result was achieved. However, ML models often react to even small changes, and disturbances can have dramatic effects on their results. Therefore, the use of AI in areas that matter to human life (agriculture, forestry, climate, health, etc.) has led to an increased need for trustworthy AI with two main components: explainability and robustness. One step toward making AI more robust is to leverage expert knowledge. For example, a farmer/forester in the loop can often bring in experience and conceptual understanding to the AI pipeline—no AI can do this. Consequently, human-centered AI (HCAI) is a combination of “artificial intelligence” and “natural intelligence” to empower, amplify, and augment human performance, rather than replace people. To achieve practical success of HCAI in agriculture and forestry, this article identifies three important frontier research areas: (1) intelligent information fusion; (2) robotics and embodied intelligence; and (3) augmentation, explanation, and verification for trusted decision support. This goal will also require an agile, human-centered design approach for three generations (G). G1: Enabling easily realizable applications through immediate deployment of existing technology. G2: Medium-term modification of existing technology. G3: Advanced adaptation and evolution beyond state-of-the-art.

The past years have been characterized by an upsurge in opaque automatic decision support systems, such as Deep Neural Networks (DNNs). Although DNNs have great generalization and prediction abilities, it is difficult to obtain detailed explanations for their behavior. As opaque Machine Learning models are increasingly being employed to make important predictions in critical domains, there is a danger of creating and using decisions that are not justifiable or legitimate. Therefore, there is a general agreement on the importance of endowing DNNs with explainability. EXplainable Artificial Intelligence (XAI) techniques can serve to verify and certify model outputs and enhance them with desirable notions such as trustworthiness, accountability, transparency, and fairness. This guide is intended to be the go-to handbook for anyone with a computer science background aiming to obtain an intuitive insight from Machine Learning models accompanied by explanations out-of-the-box. The article aims to rectify the lack of a practical XAI guide by applying XAI techniques, in particular, day-to-day models, datasets and use-cases. In each chapter, the reader will find a description of the proposed method as well as one or several examples of use with Python notebooks. These can be easily modified to be applied to specific applications. We also explain what the prerequisites are for using each technique, what the user will learn about them, and which tasks they are aimed at.

Summary: Federated learning enables collaboration in medicine, where data is scattered across multiple centers without the need to aggregate the data in a central cloud. While, in general, machine learning models can be applied to a wide range of data types, graph neural networks (GNNs) are particularly developed for graphs, which are very common in the biomedical domain. For instance, a patient can be represented by a protein–protein interaction (PPI) network where the nodes contain the patient-specific omics features. Here, we present our Ensemble-GNN software package, which can be used to deploy federated, ensemble-based GNNs in Python. Ensemble-GNN allows to quickly build predictive models utilizing PPI networks consisting of various node features such as gene expression and/or DNA methylation. We exemplary show the results from a public dataset of 981 patients and 8469 genes from the Cancer Genome Atlas (TCGA). Availability and implementation: The source code is available at https://github.com/pievos101/Ensemble-GNN, and the data at Zenodo (DOI: 10.5281/zenodo.8305122).