Package: RiboDiPA
Type: Package
Title: Differential pattern analysis for Ribo-seq data
Date: 2024-03-19
Version: 1.14.0
Authors@R: 
    c(person(given = "Keren",
             family = "Li",
             role = c("aut"),
             email = "keren.li@northwestern.edu"),
      person(given = "Matt",
             family = "Hope",
             role = "aut"),
      person(given = "Xiaozhong",
             family = "Wang",
             role = "aut"),
      person(given = "Ji-Ping",
             family = "Wang",
             role = c("aut","cre"),
             email = "jzwang@northwestern.edu"))
Description: This package performs differential pattern analysis for Ribo-seq data. It identifies genes with significantly different patterns in the ribosome footprint between two conditions. RiboDiPA contains five major components including bam file processing, P-site mapping, data binning, differential pattern analysis and footprint visualization. 
License: LGPL (>= 3)
Encoding: UTF-8
LazyData: true
Imports: Rcpp (>= 1.0.2), graphics, stats, data.table, elitism,
        methods, S4Vectors, IRanges, GenomicRanges, matrixStats,
        reldist, doParallel, foreach, parallel, qvalue, DESeq2,
        ggplot2, BiocFileCache, BiocGenerics, txdbmaker
LinkingTo: Rcpp
Depends: R (>= 4.1), Rsamtools, GenomicFeatures, GenomicAlignments
NeedsCompilation: yes
RoxygenNote: 6.1.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
biocViews: RiboSeq, GeneExpression, GeneRegulation,
        DifferentialExpression, Sequencing, Coverage, Alignment,
        RNASeq, ImmunoOncology, QualityControl, DataImport, Software,
        Normalization
Packaged: 2024-10-30 02:33:18 UTC; biocbuild
Author: Keren Li [aut],
  Matt Hope [aut],
  Xiaozhong Wang [aut],
  Ji-Ping Wang [aut, cre]
Maintainer: Ji-Ping Wang <jzwang@northwestern.edu>
git_url: https://git.bioconductor.org/packages/RiboDiPA
git_branch: RELEASE_3_20
git_last_commit: 5f86ed3
git_last_commit_date: 2024-10-29
Repository: Bioconductor 3.20
Date/Publication: 2024-10-29
Built: R 4.4.2; x86_64-conda-linux-gnu; 2024-12-24 18:36:12 UTC; unix
