Package: colocalized
Type: Package
Title: Clusters of Colocalized Sequences
Version: 0.2.0
Authors@R: person("Stefan", "Golas", email = "stefanmgolas@gmail.com", role = c("cre","aut"))
Description: Also abbreviates to "CCSeq". Finds clusters of colocalized
        sequences in .bed annotation files up to a specified cut-off
        distance. Two sequences are colocalized if they are within the
        cut-off distance of each other, and clusters are sets of
        sequences where each sequence is colocalized to at least one
        other sequence in the cluster. For a set of .bed annotation
        tables provided in a list along with a cut-off distance, the
        program will output a file containing the locations of each
        cluster. Annotated .bed files are from the 'pwmscan'
        application at <https://ccg.epfl.ch/pwmtools/pwmscan.php>.
        Personal machines might crash or take excessively long
        depending on the number of annotated sequences in each file and
        whether chromsearch() or gensearch() is used.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1.9000
Depends: R (>= 3.0.0)
Imports: foreach, doParallel, purrr, utils
NeedsCompilation: no
Packaged: 2026-10-11 12:21:46 UTC; root
Author: Stefan Golas [cre, aut]
Maintainer: Stefan Golas <stefanmgolas@gmail.com>
Repository: https://stefangolas.r-universe.dev
Date/Publication: 2019-10-18 20:20:12 UTC
RemoteUrl: https://github.com/cran/colocalized
RemoteRef: HEAD
RemoteSha: 496527ec2f80edd1b0599924bb14e623ed8965b3