covar.rm {metamicrobiomeR}

Covariate data.

Description

Monthly longitudinal clinical data of 50 infants from birth to 2 years of life.

Usage

data(covar.rm)

Format

A dataframe with 996 rows and 32 variables.

Source

Gordon Lab

References

Subramanian et al. Nature. 2014 Jun 19; 510(7505): 417–421. (PubMed)

Examples

data(covar.rm)
# Load KEGG pathway data
data(kegg.12)
# Comparison of pathway relative abundances for some first pathways of level 1 only
# and assuming crosssectional data (to save running time)
path1<-pathway.compare(pathtab=list(kegg.12[[1]][, 1:2]),
mapfile=covar.rm,sampleid="sampleid",pathsum="rel", stat.med="gamlss",
comvar="gender",adjustvar=c("age.sample","bf"), longitudinal="no",
p.adjust.method="fdr", percent.filter=0.05,relabund.filter=0.00005)
taxcomtab.show(taxcomtab=path1$l1, sumvar="path",tax.lev="l2",
tax.select="none", showvar="genderMale", p.adjust.method="fdr",p.cutoff=1)