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Subset regions from cistromes params and fix dotplot repressors#337

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DanieFD wants to merge 8 commits into
aertslab:mainfrom
DanieFD:danie_dev_branch
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Subset regions from cistromes params and fix dotplot repressors#337
DanieFD wants to merge 8 commits into
aertslab:mainfrom
DanieFD:danie_dev_branch

Resolved all merge conflicts and completed merge

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