Computes the degrees of freedom of the lasso,
        elastic net, generalized elastic net and adaptive lasso based
        on the generalized path seeking algorithm.  The optimal model
        can be selected by model selection criteria including Mallows'
        Cp, bias-corrected AIC (AICc), generalized cross validation
        (GCV) and BIC.

Provides new functions info(), warn() and error(), similar to message(),
    warning() and stop() respectively. However, the new functions can have a 'level'
    associated with them, so that when executed the global level option determines whether
    they are shown or not. This allows debug modes, outputting more information. The can also
    output all messages to a log file.

Allows for the computation of mSHAP values on
    two-part models as proposed  by Matthews, S. and Hartman, B. 
    (2021) <arXiv:2106.08990>.
    Also contains functions for simple plotting of
    the results (or any SHAP values). For information about the
    TreeSHAP algorithm that mSHAP builds on, see Lundberg, S.M.,
    Erion, G., Chen, H., DeGrave, A., Prutkin, J.M., Nair, B., Katz,
    R., Himmelfarb, J., Bansal, N., Lee, S.I. (2020)
    <doi:10.1038/s42256-019-0138-9>.

The Molecular Signatures Database ('MSigDB') is one of the most widely 
    used and comprehensive databases of gene sets for performing gene set 
    enrichment analysis <doi:10.1016/j.cels.2015.12.004>. The 'msig' package provides 
    you with powerful, easy-to-use and flexible query functions for the 'MsigDB' 
    database.
        There are 2 query modes in the 'msig' package: online query and local query. 
    Both queries contain 2 steps: gene set name and gene.
        The online search is divided into 2 modes: registered search and 
    non-registered browse. For registered search, email that you registered should 
    be provided.
        Local queries can be made from local database, which can be updated by msig_update() function.

Provides the 'Molecular Signatures Database' (MSigDB) gene
    sets typically used with the 'Gene Set Enrichment Analysis' (GSEA)
    software (Subramanian et al. 2005 <doi:10.1073/pnas.0506580102>,
    Liberzon et al. 2015 <doi:10.1016/j.cels.2015.12.004>, Castanza et al.
    2023 <doi:10.1038/s41592-023-02014-7>) as an R data frame. The package
    includes the human genes as listed in MSigDB as well as the
    corresponding symbols and IDs for frequently studied model organisms
    such as mouse, rat, pig, fly, and yeast.