oncoprintPlot {MOMA} | R Documentation |
Function to plot genomic events in the style of oncoPrint/cBioPortal
oncoprintPlot( summary.vec, snpmat.thisClus, amps.thisClus, dels.thisClus, fusions.thisClus, important.genes, band2gene, max.events, k )
summary.vec |
: named vector of the counts, named 'Event name':'Type' where type is 'mut', 'amp', 'del', 'fus'. Mutations are in Entrez ID Amp/Deletion CNV events are in genomic band location |
snpmat.thisClus |
: SNP matrix subset to samples in current cluster |
amps.thisClus |
: CNV matrix subset to samples in current cluster (just amplifications) |
dels.thisClus |
: CNV matrix subset to samples in current cluster (just deletions) |
fusions.thisClus |
: Fusion matrix subset to samples in current cluster |
important.genes |
: well known genes to highlight in the analysis |
band2gene |
: mapping of genomic location IDs to gene name: vector of HUGO gene ids, named by genomic location |
max.events |
: maximum number of events to plot for the oncoplots |
k |
: current cluster number |
oncoprint event plot