Create_prior_cutTree

The tree generated by Cellular_preclustering

tree

The classic output from Schrodinger function

Schrod_cells

the number of clusters to cut the data

NClus

Should it jitter weights and centers around values found?

jitter

Creates weights and position priors from the hierachical clustering (tree) given
a number of clusters Nclust. The centers of each cluster is found by
\(Center = \frac{\sum\limits_{m \in cluster}{Normalized Alt_{m}}}{\sum\limits_{m \in cluster}{Normalized Alt_{m}}}\)

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.

Create_prior_cutTree: Create priors from hierarchical clustering

Description

Usage

Arguments

Value