Package: pqsfinder
Type: Package
Title: Identification of potential quadruplex forming sequences
Version: 2.27.0
Date: 2021-11-21
URL: https://pqsfinder.fi.muni.cz
Authors@R: c(person("Jiri", "Hon", role = c("aut", "cre"), email =
        "jiri.hon@gmail.com"), person("Dominika", "Labudova",
        role = "aut", email = "d.labudova@gmail.com"),
        person("Tomas", "Martinek", role = "aut", email =
        "martinto@fit.vutbr.cz"), person("Matej", "Lexa",
        role = "aut", email = "lexa@fi.muni.cz"))
Author: Jiri Hon, Dominika Labudova, Matej Lexa and Tomas Martinek
Maintainer: Jiri Hon <jiri.hon@gmail.com>
Description: Pqsfinder detects DNA and RNA sequence patterns that are
        likely to fold into an intramolecular G-quadruplex (G4). Unlike
        many other approaches, pqsfinder is able to detect G4s folded
        from imperfect G-runs containing bulges or mismatches or G4s
        having long loops. Pqsfinder also assigns an integer score to
        each hit that was fitted on G4 sequencing data and corresponds
        to expected stability of the folded G4.
License: BSD_2_clause + file LICENSE
biocViews: MotifDiscovery, SequenceMatching, GeneRegulation
Depends: R (>= 3.5.0), Biostrings
Imports: Rcpp (>= 0.12.3), GenomicRanges, IRanges, S4Vectors, methods
Suggests: BiocStyle, knitr, rmarkdown, Gviz, rtracklayer, ggplot2,
        BSgenome.Hsapiens.UCSC.hg38, testthat, stringr, stringi
LinkingTo: Rcpp, BH (>= 1.78.0)
SystemRequirements: GNU make, C++11
VignetteBuilder: knitr
RoxygenNote: 7.1.2
Encoding: UTF-8
NeedsCompilation: yes
Config/pak/sysreqs: make zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 14:31:44 UTC
RemoteUrl: https://github.com/bioc/pqsfinder
RemoteRef: HEAD
RemoteSha: 887013461383b3b542ffadf0c21085281c11ed25
Packaged: 2025-10-30 08:36:00 UTC; root
Built: R 4.6.0; x86_64-w64-mingw32; 2025-10-30 08:39:29 UTC; windows
Archs: x64
