numLoops {diffloop} | R Documentation |
numLoops
counts number of loops for each sample based on the
index of nloops and returns a data.frame
numLoops(dlo, nloops = 1:10) ## S4 method for signature 'loops,numeric' numLoops(dlo, nloops = 1:10) ## S4 method for signature 'loops,missing' numLoops(dlo, nloops = 1:10)
dlo |
A loops object |
nloops |
A numeric vector of counts to be considered |
This function shows the number of unique loops with at least
nloops
in counts. Can be used to quickly visualize relative
sequencing depth between samples
A data.frame
# Determine what samples have loops with 1-20 counts rda<-paste(system.file('rda',package='diffloop'),'loops.small.rda',sep='/') load(rda) nLoops <- numLoops(loops.small, 1:20) # Determine what samples loops with 1-10 counts by default nLoops <- numLoops(loops.small)