Package: pfamAnalyzeR
Type: Package
Title: Identification of domain isotypes in pfam data
Version: 1.11.0
Authors@R: person(given="Kristoffer",family="Vitting-Seerup", role=c("cre","aut"),email="k.vitting.seerup@gmail.com",comment = c(ORCID = "0000-0002-6450-0608"))
Description: Protein domains is one of the most import annoation of proteins we have
    with the Pfam database/tool being (by far) the most used tool. This R package enables
    the user to read the pfam prediction from both webserver and stand-alone runs into R.
    We have recently shown most human protein domains exist as multiple distinct variants 
    termed domain isotypes. Different domain isotypes are used in a cell, tissue, and 
    disease-specific manner. Accordingly, we find that domain isotypes, compared to each other,
    modulate, or abolish the functionality of a protein domain. This R package enables the
    identification and classification of such domain isotypes from Pfam data.
License: MIT + file LICENSE
Depends:
    R (>= 4.3.0),
    readr,
    stringr,
    dplyr
Imports: 
    utils,
    tibble,
    magrittr
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.2.1
Suggests: 
    BiocStyle,
    knitr,
    rmarkdown
VignetteBuilder: knitr
biocViews: 
    AlternativeSplicing,
    TranscriptomeVariant,
    BiomedicalInformatics,
    FunctionalGenomics,
    SystemsBiology,
    Annotation,
    FunctionalPrediction,
    GenePrediction,
    DataImport
BugReports: https://github.com/kvittingseerup/pfamAnalyzeR/issues
git_url: https://git.bioconductor.org/packages/pfamAnalyzeR
git_branch: devel
git_last_commit: 52a663f
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
