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  "Title": "Search and visualize intramolecular triplex-forming sequences in\nDNA",
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  "Authors@R": "c(person(\"Jiri\", \"Hon\", role = c(\"aut\", \"cre\"),\nemail = \"jiri.hon@gmail.com\"),\nperson(\"Matej\", \"Lexa\", role = \"aut\",\nemail = \"lexa@fi.muni.cz\"),\nperson(\"Tomas\", \"Martinek\", role = \"aut\",\nemail = \"martinto@fit.vutbr.cz\"),\nperson(\"Kamil\", \"Rajdl\", role = \"aut\"),\nperson(\"Daniel\", \"Kopecek\", role = \"ctb\"))",
  "Author": "Jiri Hon, Matej Lexa, Tomas Martinek and Kamil Rajdl with\ncontributions from Daniel Kopecek",
  "Maintainer": "Jiri Hon <jiri.hon@gmail.com>",
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