Description Usage Arguments Value
This function finds the variable genes in an SCE object.
The means and variances of the genes are calculated from the raw counts
of the cluster set. Then, the means and variances are log-transformed
after adding a constant of 1. A loess regression line is fit between
the log counts and log variance, and the only top genes
ranked by residual are variable genes used to initialize the clusters.
The number of genes is specified with n_genes
.
The span for the loess function is given by lss
(default is 0.3).
1 | get_var_genes(x, n_genes = 2000, lss = 0.3, verbose = FALSE)
|
x |
An SCE object. |
n_genes |
Number of variable genes to return. |
lss |
Numeric value of the span parameter of the loess regression. |
verbose |
Verbosity. |
An SCE object
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