CRAN
QuantumClone 1.0.0.6
Clustering Mutations using High Throughput Sequencing (HTS) Data
Released Nov 13, 2017 by Paul Deveau
This package cannot yet be used with Renjin it depends on other packages which are not available: compiler and fpc 2.1-11.1
Dependencies
fpc 2.1-11.1 ggplot2 3.0.0 NbClust 3.0 gridExtra 2.3 DEoptim 2.2-4 foreach 1.4.4 doParallel 1.0.11 optimx 2014.5.4
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.