MaskSDM with Shapley values to improve flexibility, robustness, and explainability in species distribution modeling

Species Distribution Models (SDMs) play a vital role in biodiversity research, conservation planning, and ecological niche modeling by predicting species distributions based on environmental conditions. The selection of predictors is crucial, strongly impacting both model accuracy and how well the predictions reflect ecological patterns. To ensure meaningful insights, input variables must be carefully chosen to match the study objectives and the ecological requirements of the target species. However, existing SDMs, including both traditional and deep learning-based approaches, often lack key capabilities for variable selection: (i) flexibility to choose relevant predictors at inference without retraining; (ii) robustness to handle missing predictor values without compromising accuracy; and (iii) explainability to interpret and accurately quantify each predictor's contribution. To overcome these limitations, we introduce MaskSDM, a novel deep learning-based SDM that enables flexible predictor selection by employing a masked training strategy. This approach allows the model to make predictions with arbitrary subsets of input variables while remaining robust to missing data. It also provides a clearer understanding of how adding or removing a given predictor affects model performance and predictions. Additionally, MaskSDM leverages Shapley values for precise predictor contribution assessments, improving upon traditional approximations. We evaluate MaskSDM on the global sPlotOpen dataset, modeling the distributions of 12,738 plant species. Our results show that MaskSDM outperforms imputation-based methods and approximates models trained on specific subsets of variables. These findings underscore MaskSDM's potential to increase the applicability and adoption of SDMs, laying the groundwork for developing foundation models in SDMs that can be readily applied to diverse ecological applications.

A Multi-Modal Federated Learning Framework for Remote Sensing Image Classification

Federated learning (FL) enables the collaborative training of deep neural networks across decentralized data archives (i.e., clients) without sharing the local data of the clients. Most of the existing FL methods assume that the data distributed across all clients is associated with the same data modality. However, remote sensing (RS) images present in different clients can be associated with diverse data modalities. The joint use of the multi-modal RS data can significantly enhance classification performance. To effectively exploit decentralized and unshared multi-modal RS data, our paper introduces a novel multi-modal FL framework for RS image classification problems. The proposed framework comprises three modules: 1) multi-modal fusion (MF); 2) feature whitening (FW); and 3) mutual information maximization (MIM). The MF module employs iterative model averaging to facilitate learning without accessing multi-modal training data on clients. The FW module aims to address the limitations of training data heterogeneity by aligning data distributions across clients. The MIM module aims to model mutual information by maximizing the similarity between images from different modalities. For the experimental analyses, we focus our attention on multi-label classification and pixel-based classification tasks in RS. The results obtained using two benchmark archives show the effectiveness of the proposed framework when compared to state-of-the-art algorithms in the literature. The code of the proposed framework will be available at https://git.tu-berlin.de/rsim/multi-modal-FL.

reBEN: Refined BigEarthNet Dataset for Remote Sensing Image Analysis

This paper presents refined BigEarthNet (reBEN) that is a large-scale, multi-modal remote sensing dataset constructed to support deep learning (DL) studies for remote sensing image analysis. The reBEN dataset consists of 549,488 pairs of Sentinel-1 and Sentinel-2 image patches. To construct reBEN, we initially consider the Sentinel-1 and Sentinel-2 tiles used to construct the BigEarthNet dataset and then divide them into patches of size 1200 m x 1200 m. We apply atmospheric correction to the Sentinel-2 patches using the latest version of the sen2cor tool, resulting in higher-quality patches compared to those present in BigEarthNet. Each patch is then associated with a pixel-level reference map and scene-level multi-labels. This makes reBEN suitable for pixel- and scene-based learning tasks. The labels are derived from the most recent CORINE Land Cover (CLC) map of 2018 by utilizing the 19-class nomenclature as in BigEarthNet. The use of the most recent CLC map results in overcoming the label noise present in BigEarthNet. Furthermore, we introduce a new geographical-based split assignment algorithm that significantly reduces the spatial correlation among the train, validation, and test sets with respect to those present in BigEarthNet. This increases the reliability of the evaluation of DL models. To minimize the DL model training time, we introduce software tools that convert the reBEN dataset into a DL-optimized data format. In our experiments, we show the potential of reBEN for multi-modal multi-label image classification problems by considering several state-of-the-art DL models. The pre-trained model weights, associated code, and complete dataset are available at https://bigearth.net.

Exploring Masked Autoencoders for Sensor-Agnostic Image Retrieval in Remote Sensing

Self-supervised learning through masked autoencoders (MAEs) has recently attracted great attention for remote sensing (RS) image representation learning, and thus embodies a significant potential for content-based image retrieval (CBIR) from ever-growing RS image archives. However, the existing studies on MAEs in RS assume that the considered RS images are acquired by a single image sensor, and thus are only suitable for uni-modal CBIR problems. The effectiveness of MAEs for cross-sensor CBIR, which aims to search semantically similar images across different image modalities, has not been explored yet. In this paper, we take the first step to explore the effectiveness of MAEs for sensor-agnostic CBIR in RS. To this end, we present a systematic overview on the possible adaptations of the vanilla MAE to exploit masked image modeling on multi-sensor RS image archives (denoted as cross-sensor masked autoencoders [CSMAEs]). Based on different adjustments applied to the vanilla MAE, we introduce different CSMAE models. We also provide an extensive experimental analysis of these CSMAE models. We finally derive a guideline to exploit masked image modeling for uni-modal and cross-modal CBIR problems in RS. The code of this work is publicly available at https://github.com/jakhac/CSMAE.

Federated Learning Across Decentralized and Unshared Archives for Remote Sensing Image Classification

Federated learning (FL) enables the collaboration of multiple deep learning models to learn from decentralized data archives (i.e., clients) without accessing data on clients. Although FL offers ample opportunities in knowledge discovery from distributed image archives, it is seldom considered in remote sensing (RS). In this paper, as a first time in RS, we present a comparative study of state-of-the-art FL algorithms. To this end, we initially provide a systematic review of the FL algorithms presented in the computer vision community for image classification problems, and select several state-of-the-art FL algorithms based on their effectiveness with respect to training data heterogeneity across clients (known as non-IID data). After presenting an extensive overview of the selected algorithms, a theoretical comparison of the algorithms is conducted based on their: 1) local training complexity; 2) aggregation complexity; 3) learning efficiency; 4) communication cost; and 5) scalability in terms of number of clients. As the classification task, we consider multi-label classification (MLC) problem since RS images typically consist of multiple classes, and thus can simultaneously be associated with multi-labels. After the theoretical comparison, experimental analyses are presented to compare them under different decentralization scenarios in terms of MLC performance. Based on our comprehensive analyses, we finally derive a guideline for selecting suitable FL algorithms in RS. The code of this work will be publicly available at https://git.tu-berlin.de/rsim/FL-RS.

Annotation Cost Efficient Active Learning for Content Based Image Retrieval

Deep metric learning (DML) based methods have been found very effective for content-based image retrieval (CBIR) in remote sensing (RS). For accurately learning the model parameters of deep neural networks, most of the DML methods require a high number of annotated training images, which can be costly to gather. To address this problem, in this paper we present an annotation cost efficient active learning (AL) method (denoted as ANNEAL). The proposed method aims to iteratively enrich the training set by annotating the most informative image pairs as similar or dissimilar, while accurately modelling a deep metric space. This is achieved by two consecutive steps. In the first step the pairwise image similarity is modelled based on the available training set. Then, in the second step the most uncertain and diverse (i.e., informative) image pairs are selected to be annotated. Unlike the existing AL methods for CBIR, at each AL iteration of ANNEAL a human expert is asked to annotate the most informative image pairs as similar/dissimilar. This significantly reduces the annotation cost compared to annotating images with land-use/land cover class labels. Experimental results show the effectiveness of our method. The code of ANNEAL is publicly available at https://git.tu-berlin.de/rsim/ANNEAL.

Label Noise Robust Image Representation Learning based on Supervised Variational Autoencoders in Remote Sensing

Due to the publicly available thematic maps and crowd-sourced data, remote sensing (RS) image annotations can be gathered at zero cost for training deep neural networks (DNNs). However, such annotation sources may increase the risk of including noisy labels in training data, leading to inaccurate RS image representation learning (IRL). To address this issue, in this paper we propose a label noise robust IRL method that aims to prevent the interference of noisy labels on IRL, independently from the learning task being considered in RS. To this end, the proposed method combines a supervised variational autoencoder (SVAE) with any kind of DNN. This is achieved by defining variational generative process based on image features. This allows us to define the importance of each training sample for IRL based on the loss values acquired from the SVAE and the task head of the considered DNN. Then, the proposed method imposes lower importance to images with noisy labels, while giving higher importance to those with correct labels during IRL. Experimental results show the effectiveness of the proposed method when compared to well-known label noise robust IRL methods applied to RS images. The code of the proposed method is publicly available at https://git.tu-berlin.de/rsim/RS-IRL-SVAE.

Learning Across Decentralized Multi-Modal Remote Sensing Archives with Federated Learning

The development of federated learning (FL) methods, which aim to learn from distributed databases (i.e., clients) without accessing data on clients, has recently attracted great attention. Most of these methods assume that the clients are associated with the same data modality. However, remote sensing (RS) images in different clients can be associated with different data modalities that can improve the classification performance when jointly used. To address this problem, in this paper we introduce a novel multi-modal FL framework that aims to learn from decentralized multi-modal RS image archives for RS image classification problems. The proposed framework is made up of three modules: 1) multi-modal fusion (MF); 2) feature whitening (FW); and 3) mutual information maximization (MIM). The MF module performs iterative model averaging to learn without accessing data on clients in the case that clients are associated with different data modalities. The FW module aligns the representations learned among the different clients. The MIM module maximizes the similarity of images from different modalities. Experimental results show the effectiveness of the proposed framework compared to iterative model averaging, which is a widely used algorithm in FL. The code of the proposed framework is publicly available at https://git.tu-berlin.de/rsim/MM-FL.

Generative Reasoning Integrated Label Noise Robust Deep Image Representation Learning in Remote Sensing

The development of deep learning based image representation learning (IRL) methods has attracted great attention in the context of remote sensing (RS) image understanding. Most of these methods require the availability of a high quantity and quality of annotated training images, which can be time-consuming and costly to gather. To reduce labeling costs, publicly available thematic maps, automatic labeling procedures or crowdsourced data can be used. However, such approaches increase the risk of including label noise in training data. It may result in overfitting on noisy labels when discriminative reasoning is employed as in most of the existing methods. This leads to sub-optimal learning procedures, and thus inaccurate characterization of RS images. In this paper, as a first time in RS, we introduce a generative reasoning integrated label noise robust representation learning (GRID) approach. GRID aims to model the complementary characteristics of discriminative and generative reasoning for IRL under noisy labels. To this end, we first integrate generative reasoning into discriminative reasoning through a variational autoencoder. This allows our approach to automatically detect training samples with noisy labels. Then, through our label noise robust hybrid representation learning strategy, GRID adjusts the whole learning procedure for IRL of these samples through generative reasoning and that of the other samples through discriminative reasoning. Our approach learns discriminative image representations while preventing interference of noisy labels during training independently from the IRL method. Thus, unlike the existing methods, GRID does not depend on the type of annotation, label noise, neural network, loss or learning task, and thus can be utilized for various RS image understanding problems. Experimental results show the effectiveness of GRID compared to state-of-the-art methods.

A Novel Self-Supervised Cross-Modal Image Retrieval Method In Remote Sensing

Due to the availability of multi-modal remote sensing (RS) image archives, one of the most important research topics is the development of cross-modal RS image retrieval (CM-RSIR) methods that search semantically similar images across different modalities. Existing CM-RSIR methods require annotated training images (which is time-consuming, costly and not feasible to gather in large-scale applications) and do not concurrently address intra- and inter-modal similarity preservation and inter-modal discrepancy elimination. In this paper, we introduce a novel self-supervised cross-modal image retrieval method that aims to: i) model mutual-information between different modalities in a self-supervised manner; ii) retain the distributions of modal-specific feature spaces similar; and iii) define most similar images within each modality without requiring any annotated training images. To this end, we propose a novel objective including three loss functions that simultaneously: i) maximize mutual information of different modalities for inter-modal similarity preservation; ii) minimize the angular distance of multi-modal image tuples for the elimination of inter-modal discrepancies; and iii) increase cosine similarity of most similar images within each modality for the characterization of intra-modal similarities. Experimental results show the effectiveness of the proposed method compared to state-of-the-art methods. The code of the proposed method is publicly available at https://git.tu-berlin.de/rsim/SS-CM-RSIR.