View source: R/class_definition.R
somatic.CNV.call | R Documentation |
Call somatic variants between healthy and disease tissues.
somatic.CNV.call(normal, tumor, prop.tumor = 1, chromosome, start, end, names)
normal |
Read count data (numeric vector) for the normal tissue. |
tumor |
Read count data (numeric vector) for the tumor. |
prop.tumor |
Proportion of the tumour DNA in the tumour sample (between 0 and 1, and less than 1 if there is normal tissue in the tumor sample). |
chromosome |
Chromosome information for the bins. |
start |
Start position of each bin (typically in bp). |
end |
End position of each bin. |
names |
Names for each bin (tyically exon names but any way to track the bins will do). |
Use read depth data from targeted sequencing experiments to call CNV between a tumor and matched healthy tissue. This is an experimental function at this stage.
An ExomeDepth object with CNV calls.
Absolutely experimental, not the main function from the package.
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