calculate_rds: calculate_rds

In agorelick/rds: Root diversity score (RDS)

calculate_rds

Description

Calculates the root diversity scores as the probability that a tree where l metastases form a cluster (have one root) exists by chance as defined by Equation (2).

Usage

calculate_rds(k, m, l, use_gmp = T)

Arguments

k	number of primary tumor region samples
m	total number of metastases samples
l	number of metastases that actually cluster together
use_gmp	Use gmp R package to calculate RDS for large trees. Required for trees with more around 30 tips (default=T)

Value

probabilility that a cluster of size l arises by chance

agorelick/rds documentation built on May 31, 2024, 3:35 a.m.