sc_QC | R Documentation |
Quality control of scRNA-seq count data
sc_QC(
counts_in,
metaData,
ct.varname,
ct.select,
sample.varname = NULL,
min.cells = 0,
min.genes = 0
)
counts_in |
Raw scRNAseq count data, each column is a cell and each row is a gene. |
metaData |
data frame, metaData with "ct.varname" specify the cell type annotation information and "sample.varname" specify the sample information |
ct.varname |
character, the name of the column in metaData that specifies the cell type annotation information |
ct.select |
vector of cell type names that you are interested in to deconvolute, default as NULL. If NULL, then use all cell types provided by single cell dataset; |
sample.varname |
character,the name of the column in metaData that specifies the sample information. If NULL, we just use the whole as one sample. |
min.cells |
numeric, we filtered out the non-expressed cells. |
min.genes |
numeric we filtered out the non-expressed genes |
Return the filtered scRNA-seq data and meta data stored in a S4 class (SingleCellExperiment)
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.