cluster.doubt: User overriden clonal deconvolution

In Subhayan18/CRUST: Multi-regional clonal deconvolution of tumor sequencing data

Description

Sample specific user curated Clone / Sub-clone decomposition of DNA sequencing data

Usage

cluster.doubt(CD.obj, sample, vaf, sample.name, cluster.num)

Arguments

CD.obj	A cluster.doc object
sample	Collumn number of the predicted.data from the cluster.doc output that contain sample IDs
vaf	Collumn number of the predicted.data from the cluster.doc output that contain variant allele frequencies used for the analysis.
sample.name	a vector of sample IDs
cluster.num	a numeric vetor of clone/sub-clonal split of respective sample

Value

A list of 3 objects

fitted.cluster includes the clustering results from the final fit with user input

predicted.data A dataframe shows the changed clustering results due to the user defined clone / sub-clone smear for the selected samples

See Also

cluster.doc

Examples

#cd.res<-cluster.doc(test.dat)
#cd.new<-cluster.doubt(cd.res,sample,vaf,c("Sample_1","Sample_3"),c(2,2,3,2))

Subhayan18/CRUST documentation built on Dec. 18, 2021, 3:03 p.m.