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  "Description": "EDIRquery provides a tool to search for genes of interest\nwithin the Exome Database of Interspersed Repeats (EDIR). A\ngene name is a required input, and users can additionally\nspecify repeat sequence lengths, minimum and maximum distance\nbetween sequences, and whether to allow a 1-bp mismatch.\nOutputs include a summary of results by repeat length, as well\nas a dataframe of query results. Example data provided includes\na subset of the data for the gene GAA (ENSG00000171298). To\nquery the full database requires providing a path to the\ndownloaded database files as a parameter.",
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  "Date/Publication": "2026-04-28 13:00:33 UTC",
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