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hicFindRestSite (version 3.7.2+galaxy0)
The organism genome fasta file to compute the restriction enzyme position.
Search pattern. For example, for HindIII this pattern is \"AAGCTT\". Both, forward and reverse strand are searched for a match. The pattern is a regexp and can contain regexp specif syntax (see https://docs.python.org/2/library/re.html). For example the pattern CG..GC will find all occurrence of CG followed by any two bases and then GC.

Find restriction sites

This scripts find the locations of a given restriction enzyme sequence. This file can be used to build an Hi-C interaction matrix with restriction enzyme resolution by hicBuildMatrix.

For more information about HiCExplorer please consider our documentation on readthedocs.io