Hyperspectral Imaging

Hyperspectral imaging (HSI) is an advanced sensing modality that simultaneously captures spatial and spectral information, enabling non-invasive, label-free analysis of material, chemical, and biological properties. This Primer presents a comprehensive overview of HSI, from the underlying physical principles and sensor architectures to key steps in data acquisition, calibration, and correction. We summarize common data structures and highlight classical and modern analysis methods, including dimensionality reduction, classification, spectral unmixing, and AI-driven techniques such as deep learning. Representative applications across Earth observation, precision agriculture, biomedicine, industrial inspection, cultural heritage, and security are also discussed, emphasizing HSI's ability to uncover sub-visual features for advanced monitoring, diagnostics, and decision-making. Persistent challenges, such as hardware trade-offs, acquisition variability, and the complexity of high-dimensional data, are examined alongside emerging solutions, including computational imaging, physics-informed modeling, cross-modal fusion, and self-supervised learning. Best practices for dataset sharing, reproducibility, and metadata documentation are further highlighted to support transparency and reuse. Looking ahead, we explore future directions toward scalable, real-time, and embedded HSI systems, driven by sensor miniaturization, self-supervised learning, and foundation models. As HSI evolves into a general-purpose, cross-disciplinary platform, it holds promise for transformative applications in science, technology, and society.

TerraMAE: Learning Spatial-Spectral Representations from Hyperspectral Earth Observation Data via Adaptive Masked Autoencoders

Hyperspectral satellite imagery offers sub-30 m views of Earth in hundreds of contiguous spectral bands, enabling fine-grained mapping of soils, crops, and land cover. While self-supervised Masked Autoencoders excel on RGB and low-band multispectral data, they struggle to exploit the intricate spatial-spectral correlations in 200+ band hyperspectral images. We introduce TerraMAE, a novel HSI encoding framework specifically designed to learn highly representative spatial-spectral embeddings for diverse geospatial analyses. TerraMAE features an adaptive channel grouping strategy, based on statistical reflectance properties to capture spectral similarities, and an enhanced reconstruction loss function that incorporates spatial and spectral quality metrics. We demonstrate TerraMAE's effectiveness through superior spatial-spectral information preservation in high-fidelity image reconstruction. Furthermore, we validate its practical utility and the quality of its learned representations through strong performance on three key downstream geospatial tasks: crop identification, land cover classification, and soil texture prediction.

Honey Classification using Hyperspectral Imaging and Machine Learning

In this paper, we propose a machine learning-based method for automatically classifying honey botanical origins. Dataset preparation, feature extraction, and classification are the three main steps of the proposed method. We use a class transformation method in the dataset preparation phase to maximize the separability across classes. The feature extraction phase employs the Linear Discriminant Analysis (LDA) technique for extracting relevant features and reducing the number of dimensions. In the classification phase, we use Support Vector Machines (SVM) and K-Nearest Neighbors (KNN) models to classify the extracted features of honey samples into their botanical origins. We evaluate our system using a standard honey hyperspectral imaging (HSI) dataset. Experimental findings demonstrate that the proposed system produces state-of-the-art results on this dataset, achieving the highest classification accuracy of 95.13% for hyperspectral image-based classification and 92.80% for hyperspectral instance-based classification.

Cross-domain Hyperspectral Image Classification based on Bi-directional Domain Adaptation

Utilizing hyperspectral remote sensing technology enables the extraction of fine-grained land cover classes. Typically, satellite or airborne images used for training and testing are acquired from different regions or times, where the same class has significant spectral shifts in different scenes. In this paper, we propose a Bi-directional Domain Adaptation (BiDA) framework for cross-domain hyperspectral image (HSI) classification, which focuses on extracting both domain-invariant features and domain-specific information in the independent adaptive space, thereby enhancing the adaptability and separability to the target scene. In the proposed BiDA, a triple-branch transformer architecture (the source branch, target branch, and coupled branch) with semantic tokenizer is designed as the backbone. Specifically, the source branch and target branch independently learn the adaptive space of source and target domains, a Coupled Multi-head Cross-attention (CMCA) mechanism is developed in coupled branch for feature interaction and inter-domain correlation mining. Furthermore, a bi-directional distillation loss is designed to guide adaptive space learning using inter-domain correlation. Finally, we propose an Adaptive Reinforcement Strategy (ARS) to encourage the model to focus on specific generalized feature extraction within both source and target scenes in noise condition. Experimental results on cross-temporal/scene airborne and satellite datasets demonstrate that the proposed BiDA performs significantly better than some state-of-the-art domain adaptation approaches. In the cross-temporal tree species classification task, the proposed BiDA is more than 3\%$\sim$5\% higher than the most advanced method. The codes will be available from the website: https://github.com/YuxiangZhang-BIT/IEEE_TCSVT_BiDA.

Hyperspectral Image Classification via Transformer-based Spectral-Spatial Attention Decoupling and Adaptive Gating

Deep neural networks face several challenges in hyperspectral image classification, including high-dimensional data, sparse distribution of ground objects, and spectral redundancy, which often lead to classification overfitting and limited generalization capability. To more effectively extract and fuse spatial context with fine spectral information in hyperspectral image (HSI) classification, this paper proposes a novel network architecture called STNet. The core advantage of STNet stems from the dual innovative design of its Spatial-Spectral Transformer module: first, the fundamental explicit decoupling of spatial and spectral attention ensures targeted capture of key information in HSI; second, two functionally distinct gating mechanisms perform intelligent regulation at both the fusion level of attention flows (adaptive attention fusion gating) and the internal level of feature transformation (GFFN). This characteristic demonstrates superior feature extraction and fusion capabilities compared to traditional convolutional neural networks, while reducing overfitting risks in small-sample and high-noise scenarios. STNet enhances model representation capability without increasing network depth or width. The proposed method demonstrates superior performance on IN, UP, and KSC datasets, outperforming mainstream hyperspectral image classification approaches.

Class-Incremental Learning for Honey Botanical Origin Classification with Hyperspectral Images: A Study with Continual Backpropagation

Honey is an important commodity in the global market. Honey types of different botanical origins provide diversified flavors and health benefits, thus having different market values. Developing accurate and effective botanical origin-distinguishing techniques is crucial to protect consumers' interests. However, it is impractical to collect all the varieties of honey products at once to train a model for botanical origin differentiation. Therefore, researchers developed class-incremental learning (CIL) techniques to address this challenge. This study examined and compared multiple CIL algorithms on a real-world honey hyperspectral imaging dataset. A novel technique is also proposed to improve the performance of class-incremental learning algorithms by combining with a continual backpropagation (CB) algorithm. The CB method addresses the issue of loss-of-plasticity by reinitializing a proportion of less-used hidden neurons to inject variability into neural networks. Experiments showed that CB improved the performance of most CIL methods by 1-7\%.

Evidential Deep Learning with Spectral-Spatial Uncertainty Disentanglement for Open-Set Hyperspectral Domain Generalization

Open-set domain generalization(OSDG) for hyperspectral image classification presents significant challenges due to the presence of unknown classes in target domains and the need for models to generalize across multiple unseen domains without target-specific adaptation. Existing domain adaptation methods assume access to target domain data during training and fail to address the fundamental issue of domain shift when unknown classes are present, leading to negative transfer and reduced classification performance. To address these limitations, we propose a novel open-set domain generalization framework that combines four key components: Spectrum-Invariant Frequency Disentanglement (SIFD) for domain-agnostic feature extraction, Dual-Channel Residual Network (DCRN) for robust spectral-spatial feature learning, Evidential Deep Learning (EDL) for uncertainty quantification, and Spectral-Spatial Uncertainty Disentanglement (SSUD) for reliable open-set classification. The SIFD module extracts domain-invariant spectral features in the frequency domain through attention-weighted frequency analysis and domain-agnostic regularization, while DCRN captures complementary spectral and spatial information via parallel pathways with adaptive fusion. EDL provides principled uncertainty estimation using Dirichlet distributions, enabling the SSUD module to make reliable open-set decisions through uncertainty-aware pathway weighting and adaptive rejection thresholding. Experimental results on three cross-scene hyperspectral classification tasks show that our approach achieves performance comparable to state-of-the-art domain adaptation methods while requiring no access to the target domain during training. The implementation will be made available at https://github.com/amir-khb/SSUDOSDG upon acceptance.

Fine-grained Hierarchical Crop Type Classification from Integrated Hyperspectral EnMAP Data and Multispectral Sentinel-2 Time Series: A Large-scale Dataset and Dual-stream Transformer Method

Fine-grained crop type classification serves as the fundamental basis for large-scale crop mapping and plays a vital role in ensuring food security. It requires simultaneous capture of both phenological dynamics (obtained from multi-temporal satellite data like Sentinel-2) and subtle spectral variations (demanding nanometer-scale spectral resolution from hyperspectral imagery). Research combining these two modalities remains scarce currently due to challenges in hyperspectral data acquisition and crop types annotation costs. To address these issues, we construct a hierarchical hyperspectral crop dataset (H2Crop) by integrating 30m-resolution EnMAP hyperspectral data with Sentinel-2 time series. With over one million annotated field parcels organized in a four-tier crop taxonomy, H2Crop establishes a vital benchmark for fine-grained agricultural crop classification and hyperspectral image processing. We propose a dual-stream Transformer architecture that synergistically processes these modalities. It coordinates two specialized pathways: a spectral-spatial Transformer extracts fine-grained signatures from hyperspectral EnMAP data, while a temporal Swin Transformer extracts crop growth patterns from Sentinel-2 time series. The designed hierarchical classification head with hierarchical fusion then simultaneously delivers multi-level crop type classification across all taxonomic tiers. Experiments demonstrate that adding hyperspectral EnMAP data to Sentinel-2 time series yields a 4.2% average F1-scores improvement (peaking at 6.3%). Extensive comparisons also confirm our method's higher accuracy over existing deep learning approaches for crop type classification and the consistent benefits of hyperspectral data across varying temporal windows and crop change scenarios. Codes and dataset are available at https://github.com/flyakon/H2Crop.

A Novel Large-scale Crop Dataset and Dual-stream Transformer Method for Fine-grained Hierarchical Crop Classification from Integrated Hyperspectral EnMAP Data and Multispectral Sentinel-2 Time Series

Fine-grained crop classification is crucial for precision agriculture and food security monitoring. It requires simultaneous capture of both phenological dynamics (obtained from multi-temporal satellite data like Sentinel-2) and subtle spectral variations (demanding nanometer-scale spectral resolution from hyperspectral imagery). Research combining these two modalities remains scarce currently due to challenges in hyperspectral data acquisition and crop types annotation costs. To address these issues, we construct a hierarchical hyperspectral crop dataset (H2Crop) by integrating 30m-resolution EnMAP hyperspectral data with Sentinel-2 time series. With over one million annotated field parcels organized in a four-tier crop taxonomy, H2Crop establishes a vital benchmark for fine-grained agricultural crop classification and hyperspectral image processing. We propose a dual-stream Transformer architecture that synergistically processes these modalities. It coordinates two specialized pathways: a spectral-spatial Transformer extracts fine-grained signatures from hyperspectral EnMAP data, while a temporal Swin Transformer extracts crop growth patterns from Sentinel-2 time series. The designed hierarchy classification heads with hierarchical fusion then simultaneously delivers multi-level classification across all taxonomic tiers. Experiments demonstrate that adding hyperspectral EnMAP data to Sentinel-2 time series yields a 4.2% average F1-scores improvement (peaking at 6.3%). Extensive comparisons also confirming our method's higher accuracy over existing deep learning approaches for crop type classification and the consistent benefits of hyperspectral data across varying temporal windows and crop change scenarios. Codes and dataset will be available at https://github.com/flyakon/H2Crop and www.glass.hku.hk Keywords: Crop type classification, precision agriculture, remote sensing, deep learning, hyperspectral data, Sentinel-2 time series, fine-grained crops

Parameter-Efficient Fine-Tuning of Multispectral Foundation Models for Hyperspectral Image Classification

Foundation models have achieved great success across diverse domains, including remote sensing (RS), thanks to their versatility and strong generalization abilities. However, most RS foundation models are designed for multispectral data, while hyperspectral imagery (HSI) - with its hundreds of spectral bands - remains less explored. Fine-tuning such models for downstream tasks is also challenging, often demanding considerable memory and storage. In this paper, we propose an efficient framework to fine-tune SpectralGPT, a multispectral foundation model, for hyperspectral image classification (HSIC). We explore several Parameter-Efficient Fine-Tuning (PEFT) methods, including Low-Rank Adaptation (LoRA), Kronecker-based adaptation (KronA), Low-Rank Kronecker (LoKr), and the recent LoRA+, which uses distinct learning rates for low-rank adapters scaled by a factor lambda. Inspired by LoRA+, we introduce KronA+, which applies a similar mechanism to the Kronecker matrices. We evaluate our approach on five datasets from different sensors, showing competitive performance with state-of-the-art HSI models. Our full fine-tuning (FFT) setup for SpectralGPT even outperforms a dedicated hyperspectral foundation model on some datasets while requiring only a quarter of the training epochs. Under the same number of epochs, KronA+ reaches similar performance with far fewer trainable parameters - just 0.056 percent - and adds only approximately 0.2 megabytes of storage, making it the most effective PEFT method tested.