This study integrates PET metabolic information with CT anatomical structures to establish a 3D multimodal segmentation dataset for lymphoma based on whole-body FDG PET/CT examinations, which bridges the gap of the lack of standardised multimodal segmentation datasets in the field of haematological malignancies. We retrospectively collected 483 examination datasets acquired between March 2011 and May 2024, involving 220 patients (106 non-Hodgkin lymphoma, 42 Hodgkin lymphoma); all data underwent ethical review and were rigorously de-identified. Complete 3D structural information was preserved during data acquisition, preprocessing and annotation, and a high-quality dataset was constructed based on the nnUNet format. By systematic technical validation and evaluation of the preprocessing process, annotation quality and automatic segmentation algorithm, the deep learning model trained based on this dataset is verified to achieve accurate segmentation of lymphoma lesions in PET/CT images with high accuracy, good robustness and reproducibility, which proves the applicability and stability of this dataset in accurate segmentation and quantitative analysis. The deep fusion of PET/CT images achieved with this dataset not only significantly improves the accurate portrayal of the morphology, location and metabolic features of tumour lesions, but also provides solid data support for early diagnosis, clinical staging and personalized treatment, and promotes the development of automated image segmentation and precision medicine based on deep learning. The dataset and related resources are available at https://github.com/SuperD0122/LymphAtlas-.