Clustering methods have been used to identify distinct groups of milk samples, cows, or herds. Fourier-transform infrared (FTIR) spectroscopy, particularly mid-infrared (MIR) spectroscopy, has been applied to individual cow milk samples to predict various milk traits. Applying clustering directly to MIR spectral data may reveal latent groups of cows associated with milk traits or health disorders and can help prevent these conditions or monitor at-risk animals. This study aimed to identify groups of individual dairy cows in early lactation directly from milk MIR spectra and to analyze their associations with milk traits. Using a dataset of 407,632 individual milk MIR records from 3,408 commercial farms, we combined (i) spectral filtering that selects informative wavenumbers, (ii) two dimensionality-reduction methods: principal component analysis (PCA) and an autoencoder, and (iii) two clustering algorithms: k-means and spectral clustering to yield eight different clustering approaches. We regrouped the assigned clusters into meta-clusters that encompassed the most similar ones identified by the eight approaches. Our results revealed five distinct meta-clusters of early-lactation individual dairy cows significantly associated with milk traits. Despite substantial differences, the eight approaches converged on the same five meta-clusters, and the classic, computationally efficient PCA-based k-means approach using the full spectrum recaptured clusters identified by more sophisticated, computationally intensive approaches. The five meta-clusters were strongly associated with DIM and appeared to reflect a gradient of negative energy balance (NEB) severity: severe, moderate, and possibly mild, while the remaining two likely represented cows recovering from NEB, one with rapid restoration of energy balance and one in early recovery.
Adulteration of bovine milk using urea remains a major food quality and health concern, motivating the development of rapid and quantitative screening tools. Conventional approaches, including laboratory-based analytical methods and spectroscopic techniques, have been used for urea detection; however, many remain less suitable for rapid, low-cost routine screening due to requirements such as specialized instrumentation, sample preparation, chemical reagents, or laboratory operation. This study introduces a pragmatic, cost-effective, accurate, and laboratory-validated MSI-based method for quantitative urea estimation under controlled density conditions using a multispectral-imaging-based regression framework. An in-house-built multispectral imaging system operating in twelve discrete spectral bands (365--940~nm) was used to acquire multispectral images of milk samples prepared with controlled urea addition and water for density balancing. Fresh milk was obtained on the day of image acquisition, and the specific gravity of the milk was verified to be 1.032 at 20°C using a hydrometer. Multiple linear regression provided an initial mapping with a high validation R2 of 0.9599, while a feed-forward neural network further improved predictive performance with a validation R2 of 0.9773. These results demonstrate the feasibility of transmittance multispectral imaging for accurate, non-destructive urea quantification under controlled density-balanced conditions, supporting its potential as a rapid screening approach for milk-quality assessment.
Dept. of Electrical and Electronic Eng. University of Peradeniya Peradeniya, Sri Lanka · Dept. of Food Science and Technology University of Peradeniya Peradeniya, Sri Lanka · Dept. of Animal Science University of Peradeniya Peradeniya, Sri Lanka
The Gaussian Mixture Model (abbrv. GMM) is a classic generative model for clustered data, for which spectral clustering based on dimension reduction via PCA has been an effective framework. In this work, we investigate kernelised covariance matrices as an alternative mechanism for dimension reduction and spectral clustering, focusing on truncation kernels that select pairs of data points with suitable separation constraints. The structure of these matrices is motivated by considerations from statistical mechanics of repulsive particle systems. Our approach is particularly relevant for the setting of imbalanced clusters, where the sizes of the largest and smallest clusters have a diverging ratio with the problem size, and existing PCA-based methods turn out to be of limited effectiveness. We demonstrate efficient dimension reduction and clustering performance of these modified covariance matrices, substantiated by quantitative bounds. In particular, they achieve superior dimension reduction guarantees compared to PCA for a wide range of parameters in the regime of imbalanced clusters. For spectral clustering, our approach exhibits improvements over PCA in the imbalanced setting, in particular guaranteeing accurate clustering in a much larger regime of intra-cluster separations. Our theoretical guarantees reflected in a range of simulation experiments that exhibit these improvements for unbalanced clustering problems. Our analytical approach, based on kernel Laplacians, provide a toolbox as well as a relevant conceptual ingredient for clustering problems at large. We believe that our work will motivate the application of such kernelised covariance matrices for related classes of statistical problems, as well as spur new investigations in the theory of random matrices.
Farm site discovery from satellite imagery is a spatiotemporal candidate ranking problem because farm evidence is distributed across pasture, field boundaries, roads, buildings, and seasonal vegetation patterns. Direct farm labels are often incomplete, which makes fully supervised detection difficult. This paper proposes a weakly supervised pipeline for ranking dairy farm candidate clusters from seasonal Sentinel imagery and open map priors. The method uses aligned spring, summer, and autumn image tiles from County Cork, Ireland, with spectral bands, vegetation indices, built area indices, and a pasture channel. A Barlow Twins encoder learns multi-season tile embeddings without farm labels. In parallel, weak OpenStreetMap farm priors are split into a prior and a held-out set. Prior features support a rule-based tile score that combines farm proximity, seasonal pasture evidence, and summer greenness, while held-out features are reserved only for proxy evaluation. The rule score is smoothed over a spatial representation graph using geographic proximity and embedding similarity, and high-scoring tiles are grouped into ranked candidate clusters. From 26,722 valid tiles, the main run selects 535 high-confidence tiles and forms 71 candidate clusters. The top 5 clusters achieve 0.60 precision within 500 m and 0.80 precision within 1000 m of held-out OpenStreetMap farm features. The top 10 clusters achieve 0.40 precision within 500 m and 0.80 precision within 1000 m. The results show that seasonal representation learning and weak geographic priors can reduce large satellite image collections into compact candidate sets for human review.
Usman Haider, Fatima Khalid, Karl Mason
School of Computer Science, University of Galway, Ireland. · Faculty of Computer Science and Engineering, GIK Institute of Engineering Sciences and Technology, Pakistan.