orgStat {FindMyFriends} | R Documentation |
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.
orgStat(object, ...) ## S4 method for signature 'pgVirtual' orgStat(object, subset, getFrequency = FALSE)
object |
A pgVirtual subclass |
... |
parameters passed on. |
subset |
Name or indexes of organisms to include |
getFrequency |
logical. Should amino/nucleic acid frequency be calculated |
A data.frame with a row per organism, with each statistic in a column
pgVirtual
: Organism statistics for all pgVirtual subclasses
testPG <- .loadPgExample(withGroups=TRUE) orgStats <- orgStat(testPG)