Package: qsea
Type: Package
Title: IP-seq data analysis and vizualization
Version: 1.28.0
Date: 2023-03-22
Authors@R: c(
        person("Matthias", "Lienhard", role=c("aut", "cre"), email="lienhard@molgen.mpg.de", comment = c(ORCID = "0000-0002-2549-3142")),
        person("Lukas", "Chavez", role="aut", comment = c(ORCID = "0000-0002-8718-8848")),
        person("Ralf", "Herwig", role="aut", comment = c(ORCID = "0000-0002-9335-1760")))
Description: qsea (quantitative sequencing enrichment analysis) was developed 
    as the successor of the MEDIPS package for analyzing data derived from 
    methylated DNA immunoprecipitation (MeDIP) experiments followed by 
    sequencing (MeDIP-seq). However, qsea provides several functionalities for 
    the analysis of other kinds of quantitative sequencing data 
    (e.g. ChIP-seq, MBD-seq, CMS-seq and others) 
    including calculation of differential enrichment between groups of samples.
License: GPL-2
biocViews: Sequencing, DNAMethylation, CpGIsland, ChIPSeq,
        Preprocessing, Normalization, QualityControl, Visualization,
        CopyNumberVariation, ChipOnChip, DifferentialMethylation
Depends: R (>= 4.3)
Imports: Biostrings, graphics, gtools, methods, stats, utils, HMMcopy,
        rtracklayer, BSgenome, GenomicRanges, Rsamtools, IRanges,
        limma, GenomeInfoDb, BiocGenerics, grDevices, zoo,
        BiocParallel, S4Vectors
VignetteBuilder: knitr
Suggests: BSgenome.Hsapiens.UCSC.hg19, MEDIPSData, testthat, BiocStyle,
        knitr, rmarkdown, BiocManager, MASS
ByteCompile: no
Packaged: 2023-10-24 22:35:12 UTC; biocbuild
NeedsCompilation: yes
git_url: https://git.bioconductor.org/packages/qsea
git_branch: RELEASE_3_18
git_last_commit: f1623a1
git_last_commit_date: 2023-10-24
Date/Publication: 2023-10-24
Author: Matthias Lienhard [aut, cre] (<https://orcid.org/0000-0002-2549-3142>),
  Lukas Chavez [aut] (<https://orcid.org/0000-0002-8718-8848>),
  Ralf Herwig [aut] (<https://orcid.org/0000-0002-9335-1760>)
Maintainer: Matthias Lienhard <lienhard@molgen.mpg.de>
Built: R 4.3.2; x86_64-apple-darwin13.4.0; 2023-12-07 07:03:16 UTC; unix
