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ALTREE-ADD-S(1P) - Linux man page online | User commands

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2017-10-06
ALTREE-ADD-S(1p) User Contributed Perl Documentation ALTREE-ADD-S(1p)

NAME

altree-add-S - Title...

SYNOPSIS

altree-add-S [options] Options: --version program version --short-help|h brief help message --help help message with options descriptions --man full documentation --first-input-file|i input file 1 --second-input-file|j input file 2 data concerning the trait (qualitative or quantitative ↲ ) --output-file|o output file --epsilon|e epsilon value --data-type|t data type: SNP or DNA --proportion|p proportion of cases in the sample (for qualitative data only) --data-qual|q data type: qualitative or quantitative [--outgroup|g] name of the outgroup --low|l if an haplotype is present equal or less than -l times, the state o ↲ f S will be set to "?"

OPTIONS

--version Print the program version and exits. --short-help Print a brief help message and exits. --help Print a help message with options descriptions and exits. --man Prints the manual page and exits. --first-input-file|i Input file 1 (paup or phylip file) --second-input-file|j Input file 2, contains the number of times a given haplotypes is carried by case and control individuals (qualitative data) or the quantitative values correqsponding to a givent haplotype (quantitative data) --output-file|o Output file --epsilon|e espilon parameter (see formula in the documentation) --data-type|t Type of data: DNA (ATGCU) or SNP (0-1) --proportion|p Proportion of case individuals in the sample --outgroup|g Name of the outgroup (if it is not in the file containing the number of cases and controls per haplotype) --data-qual|q Specify if the data are qualitative or quantitative --low|l if an haplotype is present equal or less than -l times, the state of S will be set to "?"

DESCRIPTION

This program adds a new character (called "character S") to each haplotype in the input file according to the number of cases and controls carrying it.
perl v5.26.1 2017-10-06 ALTREE-ADD-S(1p)
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