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Oct 8

TopoLoRA-SAM: Topology-Aware Parameter-Efficient Adaptation of Foundation Segmenters for Thin-Structure and Cross-Domain Binary Semantic Segmentation

Foundation segmentation models such as the Segment Anything Model (SAM) exhibit strong zero-shot generalization through large-scale pretraining, but adapting them to domain-specific semantic segmentation remains challenging, particularly for thin structures (e.g., retinal vessels) and noisy modalities (e.g., SAR imagery). Full fine-tuning is computationally expensive and risks catastrophic forgetting. We propose TopoLoRA-SAM, a topology-aware and parameter-efficient adaptation framework for binary semantic segmentation. TopoLoRA-SAM injects Low-Rank Adaptation (LoRA) into the frozen ViT encoder, augmented with a lightweight spatial convolutional adapter and optional topology-aware supervision via differentiable clDice. We evaluate our approach on five benchmarks spanning retinal vessel segmentation (DRIVE, STARE, CHASE\_DB1), polyp segmentation (Kvasir-SEG), and SAR sea/land segmentation (SL-SSDD), comparing against U-Net, DeepLabV3+, SegFormer, and Mask2Former. TopoLoRA-SAM achieves the best retina-average Dice and the best overall average Dice across datasets, while training only 5.2\% of model parameters (sim4.9M). On the challenging CHASE\_DB1 dataset, our method substantially improves segmentation accuracy and robustness, demonstrating that topology-aware parameter-efficient adaptation can match or exceed fully fine-tuned specialist models. Code is available at : https://github.com/salimkhazem/Seglab.git

Talan Talan
·
Jan 5

When Online Adaptation Hurts: Parameter-Frozen Test-Time Ensembling for Continual Medical Image Segmentation

Medical image segmenters often get worse when sites, scanner vendors, or protocols change. Continual test-time adaptation (CTTA) addresses this problem without target labels, but it can be impossible to update a model on a non-stationary stream and can lead to a lot of errors. We examine a more reasonable and meaningful alternative: parameter-frozen inference enhancement(PIE). We use a source-trained segmenter that learns about anatomy-preserving scale and flip views, maps their predictions back to the native location, and averages the probabilities. We do not modify the weights of the model or the normalization statistics. On a cardiac MRI stream from M\&Ms, which is trained on vendor A and evaluated sequentially on vendors B, C, and D, PIE has 0.7786 mean Dice, compared to 0.7680 for source-only inference and 0.7388--0.7416 for five other online-adaptation baselines. The controlled ablations show that performance saturates at 28 views, and confidence weighting, class-prior correction, connected-component filtering, morphological refinement, and inter-slice smoothing have no effect or cause negative transfer. Qualitative results on cardiac MRI and fundus images are also consistent with the frozen ensemble keeping thinner and nested anatomical structures. These results provide a strong, stable baseline for medical CTTA and expose an important failure mode: adaptation and handcrafted refinement can be less reliable than carefully designed inference.

  • 1 authors
·
Sep 17

FPicker: Topology-Guided Evolution for Filament Tracing in Low-SNR Microscopy

Automating filament tracing in Cryo-Electron Microscopy (Cryo-EM) is essential for 3D helical reconstruction but challenged by intersecting topologies and extremely low Signal-to-Noise Ratios (SNR = σ_s^2/σ_n^2 < 0.1 or -10 dB). Existing paradigms fail: pixel-wise segmenters suffer from severe topological fracturing, box-based detectors face ghost center drift, sequential trackers derail due to error accumulation, and traditional active contours collapse under artificial closed-curve constraints. To resolve these bottlenecks, we present FPicker, the first topology-guided framework reconciling these incompatibilities. It unifies perception via a center-endpoint representation and an open-curve evolution module to explicitly model non-cyclic connectivity. On simulated benchmarks, FPicker outperforms top baselines by over 40% relative gain in mean spatio-angular precision (mSAP) and reduces topological gap rates by over 60% under extreme noise (-20 dB). By learning intrinsic physical geometry rather than local texture, FPicker demonstrates strong potential as a resilient geometric backbone. Its zero-shot performance on the real-world EMPIAR dataset exhibits robust topological resistance, achieving a state-of-the-art 82.9\% mSAP upon fine-tuning. Our results also suggest modeling physical priors is a highly robust path toward bridging the sim-to-real gap in signal-starved scientific imaging. The code is publicly available at: https://github.com/tomzhaosky/FPicker.

  • 3 authors
·
Sep 7

VOLA: Improving Open-World Driving by VLM-Based Semantic Attribute Prediction

Driving in the real world is open-world: a car may encounter a fallen mattress, a deer, or other objects outside its training data. Naming them is not enough. The system must know how to treat each region: can it drive over it, and how severe would a collision be? We therefore shift scene perception from category labels to dense action-relevant attributes, where each pixel is labeled by how it should affect motion rather than by object name. We instantiate this general formulation with two ordered attributes: 7-rank drivability and 5-rank vulnerability. We read Qwen3.5 image-token hidden states directly as a spatial semantic representation. A lightweight boundary-aware decoder then turns this coarse token grid into sharp full-resolution attribute maps. The whole process requires neither autoregressive text generation nor an external mask model such as SAM. We train on dense attribute labels built in CARLA and test transfer to real scenes and to novel obstacles never seen in training. We compare with vision-only segmenters trained on the same attributes and prompted VLM segmenters. Our model matches strong vision-only segmenters on familiar categories and improves transfer to real open-world anomalies, reaching 69.4% mean vulnerability-rank recall versus 57.1% for the best vision-only baseline and 53.9% for the best prompted VLM baseline. These results show that VLM image tokens provide useful semantic cues for transferring driving attributes to objects outside the training vocabulary.

  • 4 authors
·
Aug 11

ReCo: Retrieve and Co-segment for Zero-shot Transfer

Semantic segmentation has a broad range of applications, but its real-world impact has been significantly limited by the prohibitive annotation costs necessary to enable deployment. Segmentation methods that forgo supervision can side-step these costs, but exhibit the inconvenient requirement to provide labelled examples from the target distribution to assign concept names to predictions. An alternative line of work in language-image pre-training has recently demonstrated the potential to produce models that can both assign names across large vocabularies of concepts and enable zero-shot transfer for classification, but do not demonstrate commensurate segmentation abilities. In this work, we strive to achieve a synthesis of these two approaches that combines their strengths. We leverage the retrieval abilities of one such language-image pre-trained model, CLIP, to dynamically curate training sets from unlabelled images for arbitrary collections of concept names, and leverage the robust correspondences offered by modern image representations to co-segment entities among the resulting collections. The synthetic segment collections are then employed to construct a segmentation model (without requiring pixel labels) whose knowledge of concepts is inherited from the scalable pre-training process of CLIP. We demonstrate that our approach, termed Retrieve and Co-segment (ReCo) performs favourably to unsupervised segmentation approaches while inheriting the convenience of nameable predictions and zero-shot transfer. We also demonstrate ReCo's ability to generate specialist segmenters for extremely rare objects.

  • 3 authors
·
Jun 14, 2022

A Simple Video Segmenter by Tracking Objects Along Axial Trajectories

Video segmentation requires consistently segmenting and tracking objects over time. Due to the quadratic dependency on input size, directly applying self-attention to video segmentation with high-resolution input features poses significant challenges, often leading to insufficient GPU memory capacity. Consequently, modern video segmenters either extend an image segmenter without incorporating any temporal attention or resort to window space-time attention in a naive manner. In this work, we present Axial-VS, a general and simple framework that enhances video segmenters by tracking objects along axial trajectories. The framework tackles video segmentation through two sub-tasks: short-term within-clip segmentation and long-term cross-clip tracking. In the first step, Axial-VS augments an off-the-shelf clip-level video segmenter with the proposed axial-trajectory attention, sequentially tracking objects along the height- and width-trajectories within a clip, thereby enhancing temporal consistency by capturing motion trajectories. The axial decomposition significantly reduces the computational complexity for dense features, and outperforms the window space-time attention in segmentation quality. In the second step, we further employ axial-trajectory attention to the object queries in clip-level segmenters, which are learned to encode object information, thereby aiding object tracking across different clips and achieving consistent segmentation throughout the video. Without bells and whistles, Axial-VS showcases state-of-the-art results on video segmentation benchmarks, emphasizing its effectiveness in addressing the limitations of modern clip-level video segmenters. Code and models are available at https://github.com/TACJu/Axial-VS.

  • 7 authors
·
Nov 30, 2023

MedPixel: A Unified Pixel-Language Model for Medical Reasoning and Segmentation

Reliable medical image understanding requires models to connect clinical language and visual reasoning with pixel-level grounding. Yet medical vision-language models often lack precise localization, whereas medical segmenters typically rely on explicit target categories or precise spatial prompts. This divide is reinforced by a supervision mismatch: segmentation datasets provide precise masks but little language supervision, whereas medical vision-language data rarely pair language with dense spatial annotations. To address this gap, we present MedPixel, a unified medical pixel-language model built around a shared language--mask interface. To provide scalable supervision, we introduce MedPLG-440K, comprising approximately 440K pixel-language task samples constructed through a clinically motivated synthesis process without external LLM annotation. MedPixel is trained with joint multi-task supervised fine-tuning followed by Pixel-Level Preference Optimization, which uses ground-truth masks as offline verifiers to derive response preferences from mask quality. MedPixel supports a broad spectrum of tasks spanning explicit grounding, implicit reasoning, spatial interaction, grounded explanation, and medical VQA. Across this task spectrum, MedPixel achieves strong performance in both pixel-level prediction and response generation, together with effective zero-shot transfer to external grounding benchmarks and robustness to imperfect spatial prompts. Code and model checkpoints will be released at https://github.com/yhy-whu/Medpixel.

  • 8 authors
·
Aug 9

Diagnosing Diversity Collapse and Validating Mask-Conditioned Diffusion for Labeled Microtubule Microscopy

Mask-conditioned diffusion models have become standard for generating labeled training data in biomedical imaging. But the tools used to evaluate them were built for a different problem. Standard metrics like FID and KID score images through ImageNet-trained features. Those features do not transfer to microscopy, leaving the metrics poorly calibrated for specialized domains. Even with a domain-appropriate feature space, a single blended number can still hide a real failure: a model can produce visually plausible images that still transfer poorly to downstream tasks. We identify a specific failure mode: Late in training, realism keeps improving while texture diversity collapses. The model settles onto a fixed color palette, converging to a high-similarity, low-diversity state that standard metrics do not penalize. Therefore, we propose a diversity-aware diagnostic in a domain-validated feature space. It combines a realism axis based on inter-similarity to real images with a diversity axis based on intra-similarity among generated samples. This diagnostic selects a checkpoint that domain experts cannot reliably distinguish from real recordings in a forced-choice study. It also yields useful downstream segmentation: a segmenter trained only on synthetically labeled data reaches a median skeletonised IoU comparable to one trained on real data, at lower cross-fold variance, and clearly ahead of the best available public alternative in this domain, a parametric renderer. We also reproduce a data-efficient hyperparameter-transfer experiment from prior work, tuning several foundation segmenters on a small labeled subset and evaluating on real images: transfer is stronger with our data. We release DiffuMT on HuggingFace, including the triplet dataset, code to reproduce the downstream-utility validation, and a standalone diagnostic tool for evaluating mask-conditioned diffusion models.

  • 4 authors
·
Oct 6

Where's the Point? Self-Supervised Multilingual Punctuation-Agnostic Sentence Segmentation

Many NLP pipelines split text into sentences as one of the crucial preprocessing steps. Prior sentence segmentation tools either rely on punctuation or require a considerable amount of sentence-segmented training data: both central assumptions might fail when porting sentence segmenters to diverse languages on a massive scale. In this work, we thus introduce a multilingual punctuation-agnostic sentence segmentation method, currently covering 85 languages, trained in a self-supervised fashion on unsegmented text, by making use of newline characters which implicitly perform segmentation into paragraphs. We further propose an approach that adapts our method to the segmentation in a given corpus by using only a small number (64-256) of sentence-segmented examples. The main results indicate that our method outperforms all the prior best sentence-segmentation tools by an average of 6.1% F1 points. Furthermore, we demonstrate that proper sentence segmentation has a point: the use of a (powerful) sentence segmenter makes a considerable difference for a downstream application such as machine translation (MT). By using our method to match sentence segmentation to the segmentation used during training of MT models, we achieve an average improvement of 2.3 BLEU points over the best prior segmentation tool, as well as massive gains over a trivial segmenter that splits text into equally sized blocks.

  • 3 authors
·
May 30, 2023

Diffusion Model is Secretly a Training-free Open Vocabulary Semantic Segmenter

The pre-trained text-image discriminative models, such as CLIP, has been explored for open-vocabulary semantic segmentation with unsatisfactory results due to the loss of crucial localization information and awareness of object shapes. Recently, there has been a growing interest in expanding the application of generative models from generation tasks to semantic segmentation. These approaches utilize generative models either for generating annotated data or extracting features to facilitate semantic segmentation. This typically involves generating a considerable amount of synthetic data or requiring additional mask annotations. To this end, we uncover the potential of generative text-to-image diffusion models (e.g., Stable Diffusion) as highly efficient open-vocabulary semantic segmenters, and introduce a novel training-free approach named DiffSegmenter. The insight is that to generate realistic objects that are semantically faithful to the input text, both the complete object shapes and the corresponding semantics are implicitly learned by diffusion models. We discover that the object shapes are characterized by the self-attention maps while the semantics are indicated through the cross-attention maps produced by the denoising U-Net, forming the basis of our segmentation results.Additionally, we carefully design effective textual prompts and a category filtering mechanism to further enhance the segmentation results. Extensive experiments on three benchmark datasets show that the proposed DiffSegmenter achieves impressive results for open-vocabulary semantic segmentation.

  • 8 authors
·
Sep 6, 2023

ReasonNavi: Human-Inspired Global Map Reasoning for Zero-Shot Embodied Navigation

Embodied agents often struggle with efficient navigation because they rely primarily on partial egocentric observations, which restrict global foresight and lead to inefficient exploration. In contrast, humans plan using maps: we reason globally first, then act locally. We introduce ReasonNavi, a human-inspired framework that operationalizes this reason-then-act paradigm by coupling Multimodal Large Language Models (MLLMs) with deterministic planners. ReasonNavi converts a top-down map into a discrete reasoning space by room segmentation and candidate target nodes sampling. An MLLM is then queried in a multi-stage process to identify the candidate most consistent with the instruction (object, image, or text goal), effectively leveraging the model's semantic reasoning ability while sidestepping its weakness in continuous coordinate prediction. The selected waypoint is grounded into executable trajectories using a deterministic action planner over an online-built occupancy map, while pretrained object detectors and segmenters ensure robust recognition at the goal. This yields a unified zero-shot navigation framework that requires no MLLM fine-tuning, circumvents the brittleness of RL-based policies and scales naturally with foundation model improvements. Across three navigation tasks, ReasonNavi consistently outperforms prior methods that demand extensive training or heavy scene modeling, offering a scalable, interpretable, and globally grounded solution to embodied navigation. Project page: https://reasonnavi.github.io/

  • 4 authors
·
Jan 26

TRACE: Thermal Recognition Attentive-Framework for CO2 Emissions from Livestock

Quantifying exhaled CO2 from free-roaming cattle is both a direct indicator of rumen metabolic state and a prerequisite for farm-scale carbon accounting, yet no existing system can deliver continuous, spatially resolved measurements without physical confinement or contact. We present TRACE (Thermal Recognition Attentive-Framework for CO2 Emissions from Livestock), the first unified framework to jointly address per-frame CO2 plume segmentation and clip-level emission flux classification from mid-wave infrared (MWIR) thermal video. TRACE contributes three domain-specific advances: a Thermal Gas-Aware Attention (TGAA) encoder that incorporates per-pixel gas intensity as a spatial supervisory signal to direct self-attention toward high-emission regions at each encoder stage; an Attention-based Temporal Fusion (ATF) module that captures breath-cycle dynamics through structured cross-frame attention for sequence-level flux classification; and a four-stage progressive training curriculum that couples both objectives while preventing gradient interference. Benchmarked against fifteen state-of-the-art models on the CO2 Farm Thermal Gas Dataset, TRACE achieves an mIoU of 0.998 and the best result on every segmentation and classification metric simultaneously, outperforming domain-specific gas segmenters with several times more parameters and surpassing all baselines in flux classification. Ablation studies confirm that each component is individually essential: gas-conditioned attention alone determines precise plume boundary localization, and temporal reasoning is indispensable for flux-level discrimination. TRACE establishes a practical path toward non-invasive, continuous, per-animal CO2 monitoring from overhead thermal cameras at commercial scale. Codes are available at https://github.com/taminulislam/trace.

baselab BASE Lab @ SIUC
·
Mar 26