orgStat: Calculate statistics about each organism

Description

This method, much like codegroupStat calculates different statistics for each organism in the pangenome. Depending on the parameters the statistics are: number of genes, minimum length of gene, maximum length of gene standard deviation of gene lengths, residue frequency, number of gene groups and number of paralogues.

Usage

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orgStat(object, ...)

## S4 method for signature 'pgVirtual'
orgStat(object, subset, getFrequency = FALSE)

Arguments

object

A pgVirtual subclass

...

parameters passed on.

subset

Name or indexes of organisms to include

getFrequency

logical. Should amino/nucleic acid frequency be calculated

Value

A data.frame with a row per organism, with each statistic in a column

Methods (by class)

Examples

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testPG <- .loadPgExample(withGroups=TRUE)

orgStats <- orgStat(testPG)

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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