hc.ord: Order traits by similarity of LOD scores
In atbroman/neqtl: Tools for analyzing expression QTL by position on genome

Description Usage Arguments Value Author(s) See Also Examples

Traits are ordered using Hierarchical clustering of scanone output by similar positions of QTL. Can be used outside of imagelods function to order traits, if several imagelod() plots need to be made (eg. for number of traits > 100)

1	hc.ord(lods, cluster = TRUE)

`lods`	Scanone output with c("chr","pos") columns removed
`cluster`	Logical; if TRUE, order of columns is clustered, otherwise, order is same as input order.

Integer vector of lodcolumn order

Brian Yandell and Aimee Teo Broman

plot.aug.scanone

data(fake.f2expr)
fake.f2expr <- calc.genoprob(fake.f2expr)

scan.f2 <- scanone(fake.f2expr,pheno.col=1:100, method="hk")

hc.ord(scan.f2[-(1:2)],cluster=TRUE)