Based on the human cell cycle genes, the cell cycle genes of the corresponding species were captured by homologous gene conversion.
Usage
CC_GenePrefetch(
species = "Homo_sapiens",
Ensembl_version = 103,
mirror = NULL,
max_tries = 5,
use_cached_gene = 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.
Examples
ccgenes <- CC_GenePrefetch("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 <- CC_GenePrefetch("Mus_musculus")
#> Connect to the Ensembl archives...
#> Using the 103 version of biomart...
#> Connecting to the biomart...
#> Searching the dataset hsapiens ...
#> Connecting to the dataset hsapiens_gene_ensembl ...
#> Converting the geneIDs...
#> Error in collect(., Inf): Failed to collect lazy table.
#> Caused by error in `db_collect()`:
#> ! Arguments in `...` must be used.
#> ✖ Problematic argument:
#> • ..1 = Inf
#> ℹ Did you misspell an argument name?
str(ccgenes)
#> List of 3
#> $ res: NULL
#> $ S : chr [1:43] "MCM5" "PCNA" "TYMS" "FEN1" ...
#> $ G2M: chr [1:54] "HMGB2" "CDK1" "NUSAP1" "UBE2C" ...