Cluster #43
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Cluster #43
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renewiegandt
reviewed
Jan 9, 2019
| @@ -29,7 +29,8 @@ option_list <- list( | |||
| make_option(opt_str = c("--mismatch"), default = -2, help = "Mismatch score. Default = %default (CD-HIT parameter)", metavar = "integer"), | |||
| make_option(opt_str = c("--gap"), default = -6, help = "Gap score. Default = %default (CD-HIT parameter)", metavar = "integer"), | |||
| make_option(opt_str = c("--gap_ext"), default = -1, help = "Gap extension score. Default = %default (CD-HIT parameter)", metavar = "integer"), | |||
| make_option(opt_str = c("-x", "--sort_cluster_by_size"), default = 1, help = "Either sort cluster by decreasing length (= 0) or by decreasing size (= 1). Default = %default (CD-HIT parameter: -sc)", metavar = "integer") | |||
| make_option(opt_str = c("-x", "--sort_cluster_by_size"), default = 1, help = "Either sort cluster by decreasing length (= 0) or by decreasing size (= 1). Default = %default (CD-HIT parameter: -sc)", metavar = "integer"), | |||
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What is the difference between cluster length and cluster size?
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Decreasing length will sort after their sequences length whereas size sorts after number of members per cluster.
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Resolves #25