cyclicSigset {ontoProc} | R Documentation |
as in Bakken et al. (2017 PMID 29322913) create gene signatures for k cell types, each of which fails to express all but one gene in a set of k genes
cyclicSigset( idvec, conds = c("hasExp", "lacksExp"), tags = paste0("CL:X", 1:length(idvec)) )
idvec |
character vector of identifiers, must have names() set to identify cells bearing genes |
conds |
character(2) tokens used to indicate condition to which signature element contributes |
tags |
character vector of cell-type identifiers; for Cell Ontology use CL: as prefix, one element for each element of idvec |
a long data.frame
sigels = c("CL:X01"="GRIK3", "CL:X02"="NTNG1", "CL:X03"="BAGE2", "CL:X04"="MC4R", "CL:X05"="PAX6", "CL:X06"="TSPAN12", "CL:X07"="hSHISA8", "CL:X08"="SNCG", "CL:X09"="ARHGEF28", "CL:X10"="EGF") sigdf = cyclicSigset(sigels) head(sigdf)