1BP_COMPOSITE_LD(1) User Contributed Perl Documentation BP_COMPOSITE_LD(1)
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6 composite_LD -i filename.prettybase.txt --sortbyld > outfile
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9 composite_LD -i filename.prettybase [-o out.LD] [-f prettybase/csv] [--sortbyld] [--noconvertindels]
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11 DESCRIPTION
12 This a script which allows an easy way to calculate composite LD.
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14 OPTIONS
15 -i or --in filename
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17 -f or --format genotype format (prettybase or CSV)
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19 --sortbyld To see data sorted by LD instead of just all the
20 site1/site2 pair LD values.
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22 -o or --out output filename, otherwise will print to STDOUT
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24 --noconvert (applicable for prettybase format file only)
25 if specified will NOT attempt to convert indel
26 states to 'I' and delete states ('-') to 'D'.
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28 -h or --help see this documentation
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30 AUTHOR Jason Stajich, Matthew Hahn
31 For more information contact:
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33 Matthew Hahn, <matthew.hahn-at-duke.edu> Jason Stajich
34 <jason-at-bioperl-dot-org>
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38perl v5.12.0 2010-04-29 BP_COMPOSITE_LD(1)