Organizations: University of Toyama, Toyama, Japan · University of Fukui, Fukui, Japan · Chukyo University, Aichi, Japan · Japan Advanced Institute of Science and Technology (JAIST), Ishikawa, Japan
We introduce a controlled subspace intervention framework to investigate how self-supervised Vision Transformers (ViTs) encode dense geometric information. While linear probing is widely used to assess geometric representations, it treats features as a black box, failing to disentangle the underlying topology. To address this issue, we decompose the weights of converged linear probes to isolate the low-rank subspaces containing explicit geometric signals using Singular Value Decomposition (SVD). Our perspective yields three key insights: (1) Pre-training objectives determine how features are encoded. DINOv2 aligns spatial features for efficient linear extraction, while Masked Autoencoders (MAE) tend to disperse these signals, requiring a broader spatial context. (2) Explicit geometric representations are highly compressible, suggesting dense predictive heads could potentially be constrained to low-rank subspaces with minimal performance loss. (3) The layer-wise task affinity suggests that geometric precision peaks at intermediate layers before yielding to semantic abstraction in the final layers. By connecting internal encoding mechanics with downstream performance, these findings provide a basis for effective feature selection and lightweight decoder design. The source code is available at https://github.com/Zhou-Weichen/Geosubprobe.
Despite the widespread adoption of Vision Transformers (ViTs) and their success across numerous computer vision applications, the fundamental understanding of their dimensional and representational geometry remains relatively underexplored. To address this gap, we introduce Transformer Geometry Observatory (TGO), a systematic framework of experiments and analysis pipelines designed to investigate the representational geometry and dynamics of Vision Transformers. TGO-I, the first installment of the framework, focuses on the spectral geometry of ViT representations. Using a ViT-Small/16 model trained on ImageNet-100, we analyze Effective Rank, Stable Rank, Participation Ratio, Spectral Entropy, Spectral Flatness, Spectral Anisotropy, covariance structure, eigenspectra, and singular value spectra throughout training. Our results reveal a consistent increase in dimensional utilization, accompanied by decreasing anisotropy, increasing spectral entropy, increasing participation ratio, and progressively flatter eigenspectra. Contrary to the common intuition that training should concentrate information into a small number of dominant directions, we observe a progressive redistribution of variance across representational dimensions. This phenomenon is particularly pronounced in the final CLS token representation, which exhibits the highest effective dimensionality and lowest anisotropy within the network.
While Vision Transformers have achieved remarkable success across computer vision and language applications, the geometric evolution of their internal representations throughout training remains insufficiently understood. Existing analyses primarily focus on attention mechanisms and downstream performance, leaving the evolution of representation geometry largely unexplored. In this work, we present Transformer Geometry Observatory-II (TGO-II), a representation geometry analysis framework designed to investigate how Transformer representations evolve during supervised training. TGO-II analyzes Vision Transformer (ViT-Small/16) representations using Centered Kernel Alignment (CKA), Singular Vector Canonical Correlation Analysis (SVCCA), Two-Nearest Neighbor Intrinsic Dimensionality (TwoNN-ID), and token covariance analysis. Our experiments reveal three key observations. First, both CKA and SVCCA progressively decrease throughout training, indicating increasing representational specialization across Transformer layers. Second, intrinsic dimensionality consistently increases before stabilizing, suggesting progressive expansion of the representation manifold into a larger set of locally accessible degrees of freedom. Third, token covariance and coupling analyses demonstrate that strong token interaction structure persists throughout training, challenging the hypothesis that increasing representational complexity arises primarily from progressive token independence. These findings suggest that representation complexity and layer specialization emerge simultaneously during training. Manifold expansion appears to occur without token decoupling. Together, these observations motivate a new hypothesis in which Vision Transformers increase representational complexity through progressively richer transformations while preserving strong token interaction structure during learning.
Positional embeddings (PEs) in Vision Transformers (ViTs) are known to impact performance and robustness, but their role in shaping internal spatial representations is not well understood. In this work, we study how different forms of PEs influence the representational geometry of ViTs and how these changes relate to robustness under content-disrupting distribution shifts. We introduce a metric, the Spatial Similarity Distance Correlation (SSDC), to quantify spatial structure in token representations. Using this metric, we show that ViTs trained without PEs still develop non-trivial spatial structure, but this structure is driven by visual content and collapses under token permutation. In contrast, we find that all PEs considered (learned absolute, sinusoidal, and rotary) are associated with a consistent shift toward an index-anchored spatial organization. Representations in these models remain stable under perturbations that disrupt content, and exhibit substantially improved robustness to such distributional shifts. We further show that while different PEs produce distinct depth-wise trajectories of spatial structure, their robustness properties are largely similar (with secondary variation across encoding schemes), suggesting that robustness appears to depend on the presence of a stable positional reference frame more than it depends on the specific encoding mechanism. These results offer a geometric account of how positional encodings shape internal representations, with implications for the principled design of future encoding schemes.