pqsfinder: Identification of potential quadruplex forming sequences

The main functionality of the this package is to detect DNA sequence patterns that are likely to fold into an intramolecular G-quadruplex (G4). Unlike many other approaches, this package is able to detect sequences responsible for G4s folded from imperfect G-runs containing bulges or mismatches and as such is more sensitive than competing algorithms.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("pqsfinder")
AuthorJiri Hon, Matej Lexa and Tomas Martinek
Bioconductor views GeneRegulation MotifDiscovery SequenceMatching
Date of publicationNone
MaintainerJiri Hon <jiri.hon@gmail.com>
LicenseBSD_2_clause + file LICENSE
Version1.4.0

View on Bioconductor

Files

DESCRIPTION
LICENSE
NAMESPACE
NEWS
R
R/PQSViews-class.R R/RcppExports.R
build
build/vignette.rds
inst
inst/doc
inst/doc/pqsfinder.R
inst/doc/pqsfinder.Rmd
inst/doc/pqsfinder.html
inst/extdata
inst/extdata/gtrack_ahnak.RData
man
man/PQSViews-class.Rd man/PQSViews.Rd man/as.character-PQSViews-method.Rd man/density-PQSViews-method.Rd man/maxScores-PQSViews-method.Rd man/maxScores.Rd man/pqsfinder.Rd man/score-PQSViews-method.Rd man/show-PQSViews-method.Rd man/strand-PQSViews-method.Rd
src
src/Makevars
src/RcppExports.cpp
src/boost_regex
src/boost_regex/c_regex_traits.cpp
src/boost_regex/c_regex_traits.o
src/boost_regex/cpp_regex_traits.cpp
src/boost_regex/cpp_regex_traits.o
src/boost_regex/cregex.cpp
src/boost_regex/cregex.o
src/boost_regex/fileiter.cpp
src/boost_regex/fileiter.o
src/boost_regex/icu.cpp
src/boost_regex/icu.o
src/boost_regex/instances.cpp
src/boost_regex/instances.o
src/boost_regex/internals.hpp
src/boost_regex/posix_api.cpp
src/boost_regex/posix_api.o
src/boost_regex/regex.cpp
src/boost_regex/regex.o
src/boost_regex/regex_debug.cpp
src/boost_regex/regex_debug.o
src/boost_regex/regex_raw_buffer.cpp
src/boost_regex/regex_raw_buffer.o
src/boost_regex/regex_traits_defaults.cpp
src/boost_regex/regex_traits_defaults.o
src/boost_regex/static_mutex.cpp
src/boost_regex/static_mutex.o
src/boost_regex/usinstances.cpp
src/boost_regex/usinstances.o
src/boost_regex/w32_regex_traits.cpp
src/boost_regex/w32_regex_traits.o
src/boost_regex/wc_regex_traits.cpp
src/boost_regex/wc_regex_traits.o
src/boost_regex/wide_posix_api.cpp
src/boost_regex/wide_posix_api.o
src/boost_regex/winstances.cpp
src/boost_regex/winstances.o
src/features.h
src/pqs_cache.h
src/pqs_storage.h
src/pqsfinder.cpp
src/results.h
vignettes
vignettes/pqsfinder.Rmd
vignettes/pqsfinder.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.