permuteSmooth.md

% PERMUTESMOOTH(1) permuteSmooth (vcflib) | permuteSmooth (VCF statistics) % Erik Garrison and vcflib contributors

NAME

permuteSmooth

SYNOPSIS

permuteSmooth -s wcFst.smooth.txt -f wcFst.txt -n 5 -s 1

DESCRIPTION

permuteSmooth is a method for adding empirical p-values smoothed wcFst scores.

OPTIONS

Required:
      file:     f   -- argument: original wcFst data     
      smoothed: s   -- argument: smoothed wcFst data     
      format:   y   -- argument: [swcFst, segwcFst]      
Optional:
      number:   n   -- argument: the number of permutations to run for each value [1000]
      success:  u   -- argument: stop permutations after 's' successes [1]
      success:  x   -- argument: number of threads [1]

OUTPUT: **permuteSmooth** will append three additional columns:
        1. The number of successes                            
        2. The number of trials                               
        3. The empirical p-value                              


Type: statistics

EXIT VALUES

0 : Success

not 0 : Failure

SEE ALSO

vcflib(1)

OTHER

Source code

permuteSmooth.cpp

LICENSE

Copyright 2011-2024 (C) Erik Garrison and vcflib contributors. MIT licensed. Copyright 2020-2024 (C) Pjotr Prins.