DESCRIPTION

Package: forkedTF
Type: Package
Title: Creation of Forked-Position Weight Matrices, a graph model of multiple PWMs.
Version: 1.3.0
Author: c(person("Matthew Dyer",  email = "mjd443@mun.ca", role = c("aut")),
          person("Roberto Tirado",  email = "roberto@u.nus.edu", role = c("cre","aut")),
          person("Aida Ghayour-Khiavi",  email = "aghayourkhia@mun.ca", role = c("aut")),
          person("Walter Santana",  email = "wsantana@lcg.unam.mx", role = c("aut")),
          person("Touati Benoukraf",  email = "tbenoukraf@mun.ca", role = c("aut")))
Depends: R (>= 3.6.0), methods
BiocViews:
Imports: magrittr,
         dplyr,
         graphics,
         grDevices,
         TFregulomeR (>= 2.3),
         ggplot2 (>= 3.3.0),
         gridExtra (>= 2.3),
         gridGraphics (>= 0.4.1),
         ggseqlogo (>= 0.1),
         cowplot (>= 1.0.0),
         grid (>= 3.6.1),
         IRanges (>= 2.14.12), 
         S4Vectors (>= 0.18.3), 
         GenomicRanges (>= 1.32.7)
Remotes: benoukraflab/TFregulomeR
Description: Current position weight matrices and sequence logos are not adequate to model transcription factor binding sites that are composed by a mixture of homodimer and heterodimer complexes. We introduce forkedTF, an R-library that combined functions to design Forked-Position Weight Matrices (FPWM) and Forked-Sequence Logos to better portray TF dimers. forkedTF uses and produces standard objects facilitating the exportation of FPWM to third-party software.
License: GPL-3.0
Encoding: UTF-8
LazyData: true
BugReports: https://github.com/benoukraflab/forkedTF/issues
RoxygenNote: 7.2.3