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quickAssoc
takes a loops object and performs a basic
edgeR
association on the counts matrix and groups from colData
quickAssoc(y)## S3 method for class 'loops':
quickAssoc(y)
colData
for the specific loops
object. The factor normalization is based on the edgeR
model.
For quick association, the number of groups is restricted to two. If
a more complex group structure exists, consider using the loopFit
and loopTest
functions# Differential loop calling between naive and primed
rda<-paste(system.file('rda',package='diffloop'),'loops.small.rda',sep='/')
load(rda)
np <- loops.small[,1:4]
assoc_np <- quickAssoc(np)
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