Parameters are estimated by comparing means of individual genes to the median mean expression level.
splatEstOutlier(norm.counts, params)
| norm.counts | library size normalised counts matrix. |
|---|---|
| params | SplatParams object to store estimated values in. |
SplatParams object with estimated values.
Expression outlier genes are detected using the Median Absolute Deviation
(MAD) from median method. If the log2 mean expression of a gene is greater
than two MADs above the median log2 mean expression it is designated as an
outlier. The proportion of outlier genes is used to estimate the outlier
probability. Factors for each outlier gene are calculated by dividing mean
expression by the median mean expression. A log-normal distribution is then
fitted to these factors in order to estimate the outlier factor location and
scale parameters using fitdist.