grzero

matrix with probability of each possibility to belong to clone k

matrix with coefficient making transition between cellularity and frequency

adj.factor

matrix with samples in columns and number of alternative reads in rows

matrix with samples in coluns and depth of coverage in rows

Depth

Return center values for max if adj.factor has a single value for all variants/possibilities in each samples

Using HTS data, clusters mutations in order to recreate putative
clones from the data provided. It requires genotype at the location of the
variant as well as the depth of coverage and number of reads supporting the
mutation. Additional information may be provided, such as the contamination
in the tumor sample. This package also provides a function QuantumCat() which
simulates data obtained from tumor sequencing.

grzero: Gradient 0

Description

Usage

Arguments