GMPR: Computes the GMPR size factor

Description Usage Arguments Value

Description

Computes the GMPR size factor

Usage

1
GMPR(comm, intersect.no = 4, ct.min = 2, verbose = FALSE)

Arguments

comm

a matrix of counts, row - features (OTUs, genes, etc) , column - sample

intersect.no

the minimum number of shared features between sample pair, where the ratio is calculated

ct.min

the minimum number of counts required to calculate ratios ct.min = 5 has better results

verbose

suppress output

Value

A list that contains:

gmpr

the GMPR size factors for all samples; Samples with distinct sets of features will be output as NA.

nss

number of samples with significant sharing (> intersect.no) including itself


chloelulu/ZicoSeq documentation built on Nov. 4, 2019, 8:50 a.m.