MorpheusML model repository

The public MorpheusML model repository collects, curates, documents and tests computational models for multi-scale and multicellular biological systems. Model must be encoded in the model description language MorpheusML. Subsections of the repository distinguish published models from contributed non-published and example models. New models are simulated in Morpheus or Artistoo independently from the authors and results are compared to published results. Successful reproduction is documented on the model's webpage. Models in this repository are included into the CI and test pipelines for each release of the model simulator Morpheus to check and guarantee reproducibility of results across future simulator updates. The model’s webpage provides a History-link to all past model versions and edits that are automatically tracked via Git. Each model is registered with a unique and persistent ID of the format M..... The model description page (incl. the biological context and key results of that model), the model’s XML file, the associated paper, and all further files (often simulation result videos) connected with that model can be retrieved via a persistent URL of the format https://identifiers.org/morpheus/M.....公开的MorpheusML模型仓库（MorpheusML model repository）致力于收集、遴选、归档并测试面向多尺度与多细胞生物系统的计算模型。所有模型均需采用模型描述语言MorpheusML进行编码。该仓库下设子模块，用于区分已发表模型、社区贡献的未发表模型与示例模型。非原作者的独立研究人员可在Morpheus或Artistoo平台中对新模型开展仿真，并将所得结果与已发表成果进行比对。复现成功的案例将在对应模型的专属网页中予以归档记录。本仓库收录的所有模型均被纳入模型仿真器Morpheus每次正式发布的持续集成（Continuous Integration, CI）与测试流水线中，用于校验并确保在后续仿真器版本更新中，模型结果仍可被稳定复现。模型专属网页设有历史链接，可跳转至所有通过Git自动追踪记录的模型过往版本与修改日志。每个模型均会被分配格式为M……的唯一且永久标识符。用户可通过格式为https://identifiers.org/morpheus/M……的永久链接，获取模型描述页面（包含该模型的生物学背景与核心研究成果）、模型XML文件、相关学术论文，以及该模型关联的所有其他文件（通常为仿真结果视频）。

搜集汇总

背景与挑战

背景概述

MorpheusML模型仓库是一个公开资源，专门收集、管理并测试用于多尺度多细胞生物系统的计算模型，所有模型均需以MorpheusML语言编码。它通过持续集成流程确保模型的可重复性，并为每个模型提供持久标识符和版本历史跟踪。