CHIPIN/DESCRIPTION at master · BoevaLab/CHIPIN · GitHub

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Package: CHIPIN
Type: Package
Title: ChIP-seq Intersample Normalization
Version: 0.1.0
Author: L. Polit
Maintainer: L. Polit <lelia-polit@orange.fr>
Description: The ChIPIN package provides a normalization procedure to compare ChIP-seq signals between different conditions; experiments should be performed using the same antibody. Output includes normalized density profiles and additional statistics characterizing the normalization procedure. The normalization is based on the assumption that no differences in ChIP-seq signal should be observed in the regulatory regions of genes whose expression does not change across samples/conditions. Moreover, ChIPIN provides a possibility to qualify the antibody used in the ChIP-seq experiments by plotting ChIP-seq signal density around gene transcription start sites for highly, medium and lowly expressed genes.
License: GNU GENERAL PUBLIC LICENSE
Encoding: UTF-8
LazyData: false
Depends:
  R (>= 3.5),
  stringr,
  rtracklayer,
  ggplot2,
  matrixStats,
  viridis,
  preprocessCore,
  tidyr,
  plotrix,
  rlist,
  RColorBrewer,
  tiger,
  pracma,
  GenomicFeatures,
  dplyr,
  gridExtra,
  biomaRt,
  rminer
biocViews:
Imports:
  stringr,
  rtracklayer,
  ggplot2,
  matrixStats,
  viridis,
  preprocessCore,
  tidyr,
  plotrix,
  rlist,
  RColorBrewer,
  tiger,
  pracma,
  GenomicFeatures,
  dplyr,
  gridExtra,
  biomaRt,
  rminer
Suggests:
    knitr,
    rmarkdown
VignetteBuilder: knitr