Package: FindIT2
Title: find influential TF and Target based on multi-omics data
Version: 1.13.0
Authors@R:
    c(
    person("Guandong", "Shang", role = c("aut", "cre"),
    email = "shangguandong1996@163.com",
    comment = c(ORCID = "0000-0002-9509-0314"))
    )
Description: This package implements functions to find influential TF and target
    based on different input type. It have five module:
    Multi-peak multi-gene annotaion(mmPeakAnno module), 
    Calculate regulation potential(calcRP module), 
    Find influential Target based on ChIP-Seq and RNA-Seq data(Find influential Target module), 
    Find influential TF based on different input(Find influential TF module), 
    Calculate peak-gene or peak-peak correlation(peakGeneCor module).
    And there are also some other useful function like integrate different source 
    information, calculate jaccard similarity for your TF.
License: Artistic-2.0
URL: https://github.com/shangguandong1996/FindIT2
BugReports: https://support.bioconductor.org/t/FindIT2
biocViews: Software, Annotation, ChIPSeq, ATACSeq, GeneRegulation, MultipleComparison, GeneTarget
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.1.2
Suggests: 
    BiocStyle,
    knitr,
    rmarkdown,
    sessioninfo,
    testthat (>= 3.0.0),
    TxDb.Athaliana.BioMart.plantsmart28
VignetteBuilder: knitr
Depends: 
    GenomicRanges,
    R (>= 3.5.0)
Imports: 
    withr,
    BiocGenerics,
    GenomeInfoDb,
    rtracklayer,
    S4Vectors,
    GenomicFeatures,
    dplyr,
    rlang,
    patchwork,
    ggplot2,
    BiocParallel,
    qvalue,
    stringr,
    utils,
    stats,
    ggrepel,
    tibble,
    tidyr,
    SummarizedExperiment,
    MultiAssayExperiment,
    IRanges,
    progress,
    purrr,
    glmnet,
    methods
Config/testthat/edition: 3