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Available cell type markers

Source: R/markers.R
clustermole_markers.Rd

Retrieve cell type markers from the clustermole database.

Usage

clustermole_markers(species = c("hs", "mm"))

Arguments

species

Gene symbol species: hs for human or mm for mouse.

Value

A data frame of cell type markers with these columns:

  • gene: Canonical gene symbol for the requested species.

  • gene_original: Original source gene symbol.

  • celltype_full: Full cell type signature identifier.

  • db: Source database.

  • celltype: Cell type label.

  • organ: Organ label.

  • species: Source signature species, if known.

  • n_genes: Gene count per signature.

Examples

markers <- clustermole_markers()
head(markers)
#> # A tibble: 6 × 8
#>   celltype_full         db    species organ celltype gene_original gene  n_genes
#>   <chr>                 <chr> <chr>   <chr> <chr>    <chr>         <chr>   <int>
#> 1 (Pro-) Subiculum | H… ScTy… ""      Hipp… (Pro-) … ADAMTS2       ADAM…      10
#> 2 (Pro-) Subiculum | H… ScTy… ""      Hipp… (Pro-) … FN1           FN1        10
#> 3 (Pro-) Subiculum | H… ScTy… ""      Hipp… (Pro-) … KLHL1         KLHL1      10
#> 4 (Pro-) Subiculum | H… ScTy… ""      Hipp… (Pro-) … LIPM          LIPM       10
#> 5 (Pro-) Subiculum | H… ScTy… ""      Hipp… (Pro-) … NPSR1         NPSR1      10
#> 6 (Pro-) Subiculum | H… ScTy… ""      Hipp… (Pro-) … NTS           NTS        10