Define a function make the Allnodes(Node|Parent|Freq|CladeSize), where Freq is the number of variants assigned to the node(as ending point) from redeemR object,

Define a function make the Allnodes(Node|Parent|Freq|CladeSize), where Freq is the number of variants assigned to the node(as ending point) from redeemR object,

MakeAllNodes(redeemR = DN4_stemcell_redeemR.seed.verysensitive, prob.cut = 0.3)

Arguments

redeemR

a redeemR object already have the tree built

prob.cut

The probability cutoff to include confidently assigned variant