Antigen presentation dynamics shapes the response to emergent variants like the Omicron strain of SARS-CoV-2 after multiple vaccinations with the wild type strain

This repository contains original code created for the study titled "Antigen presentation dynamics shapes the response to emergent variants like the Omicron strain of SARS-CoV-2 after multiple vaccinations with the wild type strain" by Yang, Van Beek, Wang, Muecksch, Canis, Hatziioannou, Bieniasz, Nussenzweig, and Chakraborty in Cell Reports (2023).

The raw data from simulations can be downloaded from the following link:
https://mitprod-my.sharepoint.com/:u:/g/personal/leerang_mit_edu/EdtAr52PD-5IoVeTmPcYGXEBVk8vmUmOnXmwJ6IIxzIL_A?e=2DlfJh
The dataset is very large (111 GB) and exceeds the Mendeley Data storage limit.

本代码仓库包含为Yang、Van Beek、Wang、Muecksch、Canis、Hatziioannou、Bieniasz、Nussenzweig与Chakraborty于2023年发表于《细胞报告》的研究论文《抗原呈递（antigen presentation）动态塑造野生型毒株多次接种后针对严重急性呼吸综合征冠状病毒2型（SARS-CoV-2）奥密克戎毒株（Omicron strain）等新兴变异株的应答》所编写的原创代码。
模拟实验所得的原始数据可通过以下链接下载：https://mitprod-my.sharepoint.com/:u:/g/personal/leerang_mit_edu/EdtAr52PD-5IoVeTmPcYGXEBVk8vmUmOnXmwJ6IIxzIL_A?e=2DlfJh。该数据集体量庞大（111 GB），超出了Mendeley Data的存储空间限制。