Package: TFHAZ
Type: Package
Title: Transcription Factor High Accumulation Zones
Version: 1.0.0
Author: Alberto Marchesi, Marco Masseroli
Maintainer: Alberto Marchesi <alberto.march91@gmail.com>
Description: It finds trascription factor (TF) high accumulation DNA zones, 
    i.e., regions along the genome where there is a high presence of different 
    transcription factors. Starting from a dataset containing the genomic
    positions of TF binding regions, for each base of the selected chromosome
    the accumulation of TFs is computed. Three different types of accumulation 
    (TF, region and base accumulation) are available, together with the
    possibility of considering, in the single base accumulation computing, 
    the TFs present not only in that single base, but also in its neighborhood,
    within a window of a given width. Then, high accumulation DNA zones are
    defined as regions of the genome formed by contiguous bases with
    accumulation equal or higher than a given threshold. In addition, some
    functions are provided in order to analyze, visualize and compare results
    obtained with different input parameters.
License: Artistic-2.0
Encoding: UTF-8
Imports: GenomicRanges, S4Vectors, grDevices, graphics, stats, utils,
        IRanges
biocViews: Software, BiologicalQuestion, Transcription, ChIPSeq,
        Coverage
LazyData: true
Depends: R(>= 3.4)
Suggests: BiocStyle, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2017-10-31 02:19:45 UTC; biocbuild
Built: R 3.4.2; ; 2017-10-31 08:29:15 UTC; windows
