CNVPanelizerFromReadCounts {CNVPanelizer} | R Documentation |
Performs the workflow analysis with CNVPanelizer from the read counts and splitting the batch of samples analyzed
CNVPanelizerFromReadCounts(sampleReadCounts, referenceReadCounts, genomicRangesFromBed, numberOfBootstrapReplicates = 10000, normalizationMethod = "tmm", robust = TRUE, backgroundSignificanceLevel = 0.05, outputDir = file.path(getwd(), "CNVPanelizer"))
sampleReadCounts |
samples read counts matrix |
referenceReadCounts |
reference read counts matrix |
genomicRangesFromBed |
genomic ranges from bed |
numberOfBootstrapReplicates |
number of bootstrap replicates |
normalizationMethod |
Normalization method ("tmm" or "tss") |
robust |
if TRUE, the median is used instead of mean |
backgroundSignificanceLevel |
The background Significance Level |
outputDir |
Output directory |
Returns a list with the results of each samples analyzed
Cristiano Oliveira
CNVPanelizerFromReadCounts(sampleReadCounts, referenceReadCounts, genomicRangesFromBed, numberOfBootstrapReplicates = 10000, normalizationMethod = "tmm", robust = TRUE, backgroundSignificanceLevel = 0.05, outputDir = file.path(getwd(), "CNVPanelizer"))