1BP_COMPOSITE_LD(1)    User Contributed Perl Documentation   BP_COMPOSITE_LD(1)
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NAME

6       composite_LD -i filename.prettybase.txt --sortbyld > outfile
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SYNOPSIS

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)
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