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Revision as of 17:27, 31 January 2012
, 17:27, 31 January 2012no edit summary
--refFile : reference file for determining repeat counts
--refFile : reference file for determining repeat counts
--umRef : use the reference at the default UofM location, /data/local/ref/karma.ref/human.g1k.v37.umfa
--umRef : use the reference at the default UofM location, /data/local/ref/karma.ref/human.g1k.v37.umfa
--depth : min depth at which to report indel discordance, DEFAULT >= 3
--depth : min depth at which to report indel discordance, DEFAULT >= 2
--minRepeatLen : min repeat length for printing repeat info, DEFAULT = 1
--minRepeatLen : min repeat length for printing repeat info, DEFAULT = 1
--sumRepeatLen : all repeats this length and longer will be accumulated,
--sumRepeatLen : all repeats this length and longer will be accumulated,
