colocalized: Clusters of Colocalized Sequences
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.
||R (≥ 3.0.0)
||foreach, doParallel, purrr, utils
||Stefan Golas [cre, aut]
||Stefan Golas <stefanmgolas at gmail.com>
||MIT + file LICENSE
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