Table 1 Algorithms to infer clonal/cluster composition and their properties/assumptions.

Clomial ⁴

DTS¹

non-Bayesian generative Binomial

N²

N

Y³

SciClone ⁵

DTS

Bayesian Beta mixture

Y

N

Y

PyClone ⁶

DTS

Dirichlet process, Beta-Binomial

Y

N

Y

PhyloWGS ⁷

WGS⁴ and DTS

Tree-stick-breaking process, Binomial

Y

Y

Y

TrAp⁸

CP⁵

deterministic search under constraints

I⁶

Y

N

LICHeE⁹

VAF⁷, CP

perfect phylogeny model

I

Y

Y

Rec-BTP¹⁰

VAF, CP

binary tree partition

I

Y

N

CITUP¹¹

VAF, CP

combinatorial algorithm

I

Y

Y

SubCloneSeeker¹²

CP

exaustive tree enumeration

I

Y

Y

PhyloSub¹³

DTS

predecessor of PhyloWGS without phylogenic correction for CNA

Y

Y

Y

CloneHD¹⁴

WGS

HMM⁸, variational bayes

Y

N

Y