Basis matrix construction
SCDC_basis(x, ct.sub = NULL, ct.varname, sample, ct.cell.size = NULL)
| x | ExpressionSet object for single cells |
|---|---|
| ct.sub | a subset of cell types that are selected to construct basis matrix |
| ct.varname | variable name for 'cell types' |
| sample | variable name for subject/samples |
| ct.cell.size | default is NULL, which means the "library size" is calculated based on the data. Users can specify a vector of cell size factors corresponding to the ct.sub according to prior knowledge. The vector should be named: names(ct.cell.size input) should not be NULL. |
a list of basis matrix, sum of cell-type-specific library size, sample variance matrix, basis matrix by mvw, mvw matrix.