An implementation for high-dimensional time series analysis methods, including factor model for vector time series 
      proposed by Lam and Yao (2012) <doi:10.1214/12-AOS970> and Chang, Guo and Yao (2015)
      <doi:10.1016/j.jeconom.2015.03.024>, martingale difference test proposed by 
      Chang, Jiang and Shao (2023) <doi:10.1016/j.jeconom.2022.09.001>, principal 
      component analysis for vector time series proposed by Chang, Guo and Yao (2018) <doi:10.1214/17-AOS1613>,
      cointegration analysis proposed by Zhang, Robinson and Yao (2019)
      <doi:10.1080/01621459.2018.1458620>, unit root test proposed by Chang, Cheng and Yao (2022)
      <doi:10.1093/biomet/asab034>, white noise test proposed by Chang, Yao and Zhou (2017)
      <doi:10.1093/biomet/asw066>, CP-decomposition for matrix time 
      series proposed by Chang et al. (2023) <doi:10.1093/jrsssb/qkac011> and
      Chang et al. (2024) <doi:10.48550/arXiv.2410.05634>, and statistical inference for
      spectral density matrix proposed by Chang et al. (2022) 
      <doi:10.48550/arXiv.2212.13686>.

The Tweedie lasso model implements an iteratively reweighed least square (IRLS) strategy that incorporates a blockwise majorization decent (BMD) method, for efficiently computing solution paths of the (grouped) lasso and the (grouped) elastic net methods.

A protocol that facilitates the processing and analysis of Hydrogen-Deuterium Exchange Mass Spectrometry data using p-value statistics and Critical Interval analysis. 
    It provides a pipeline for analyzing data from 'HDXExaminer' (Sierra Analytics, Trajan Scientific), 
    automating matching and comparison of protein states through Welch's T-test and the Critical Interval statistical framework. 
    Additionally, it simplifies data export, generates 'PyMol' scripts, and ensures calculations meet publication standards. 
    'HDXBoxeR' assists in various aspects of hydrogen-deuterium exchange data analysis, including reprocessing data, calculating parameters, identifying significant peptides, 
    generating plots, and facilitating comparison between protein states. 
    For details check papers by Hageman and Weis (2019) <doi:10.1021/acs.analchem.9b01325> 
    and Masson et al. (2019) <doi:10.1038/s41592-019-0459-y>.
    'HDXBoxeR' citation: Janowska et al. (2024) <doi:10.1093/bioinformatics/btae479>.