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altree-add-S.1p
Langue: en
Version: 2006-01-11 (debian - 07/07/09)
Section: 1 (Commandes utilisateur)
Sommaire
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 nb cases/controls per haplotypes --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 --ancestor|a name of ancestral haplotype [--outgroup|g] name of the outgroup [--low|l] disease statut for haplotype carried by one individual
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
- --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)
- --low|l
- If this option is present, it forces the state of the character S to be ``?'' for haplotypes carried by only one individual
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.Contenus ©2006-2024 Benjamin Poulain
Design ©2006-2024 Maxime Vantorre