GeneSpec Constructor — gene

Creates a new GeneSpec object.

Usage

gene_spec(genes = NULL, fun = NULL, fun_name = deparse(substitute(fun)))

Arguments

genes: (named character or NULL)
the gene IDs, where the names are used as labels if available.
fun: (function or NULL)
summary function. If NULL is used then multiple genes are not summarized but returned as a matrix from the extract method.
fun_name: (string)
name of the summary function.

Value

A new GeneSpec object.

Examples

gene_spec("GeneID:11185")
#> <GeneSpec>
#>   Public:
#>     clone: function (deep = FALSE) 
#>     extract: function (assay) 
#>     extract_data_frame: function (assay) 
#>     get_gene_labels: function (genes = self$get_genes()) 
#>     get_genes: function () 
#>     get_label: function (genes = self$get_genes()) 
#>     initialize: function (genes = NULL, fun = NULL, fun_name = deparse(substitute(fun))) 
#>     returns_vector: function () 
#>   Private:
#>     fun: NULL
#>     fun_name: NULL
#>     gene_labels: GeneID:11185
#>     genes: GeneID:11185
gene_spec(c("GeneID:11185", "GeneID:10677", "GeneID:101928428"), fun = colMeans)
#> <GeneSpec>
#>   Public:
#>     clone: function (deep = FALSE) 
#>     extract: function (assay) 
#>     extract_data_frame: function (assay) 
#>     get_gene_labels: function (genes = self$get_genes()) 
#>     get_genes: function () 
#>     get_label: function (genes = self$get_genes()) 
#>     initialize: function (genes = NULL, fun = NULL, fun_name = deparse(substitute(fun))) 
#>     returns_vector: function () 
#>   Private:
#>     fun: function (x, na.rm = FALSE, dims = 1, ...) 
#>     fun_name: colMeans
#>     gene_labels: GeneID:11185 GeneID:10677 GeneID:101928428
#>     genes: GeneID:11185 GeneID:10677 GeneID:101928428