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Prefetch cell cycle genes

Source: R/CycGenePrefetch.R
CycGenePrefetch.Rd

Based on the human cell cycle genes, the cell cycle genes of the corresponding species were captured by homologous gene conversion.

Usage

CycGenePrefetch(
  species = "Homo_sapiens",
  Ensembl_version = NULL,
  mirror = NULL,
  max_tries = 5,
  use_cached_gene = TRUE,
  verbose = TRUE
)

Arguments

species

Latin names for animals, i.e., "Homo_sapiens", "Mus_musculus"

Ensembl_version

Ensembl database version. If NULL, use the current release version.

mirror

Specify an Ensembl mirror to connect to. The valid options here are "www", "uswest", "useast", "asia".

max_tries

The maximum number of attempts to connect with the BioMart service.

use_cached_gene

Whether to use previously cached cell cycle gene conversion results for the species. Default is TRUE.

verbose

Whether to print the message. Default is TRUE.

Value

A list of S-phase and G2M-phase genes.

See also

GeneConvert

Examples

ccgenes <- CycGenePrefetch("Homo_sapiens")
str(ccgenes)
#> List of 3
#>  $ res: NULL
#>  $ S  : chr [1:43] "MCM5" "PCNA" "TYMS" "FEN1" ...
#>  $ G2M: chr [1:54] "HMGB2" "CDK1" "NUSAP1" "UBE2C" ...

ccgenes <- CycGenePrefetch("Mus_musculus")
#> Error in loadNamespace(x): there is no package called ‘R.cache’
str(ccgenes)
#> List of 3
#>  $ res: NULL
#>  $ S  : chr [1:43] "MCM5" "PCNA" "TYMS" "FEN1" ...
#>  $ G2M: chr [1:54] "HMGB2" "CDK1" "NUSAP1" "UBE2C" ...