fetchAllSets.RdFetch information about all gene sets in the Gesel database.
fetchAllSets(species, config = NULL)String containing the NCBI taxonomy ID of the species of interest.
Configuration list, typically created by newConfig.
If NULL, the default configuration is used.
Data frame of gene set information. Each row represents a gene set and contains:
name, string containing the name of the gene set.
description, string containing a description of the gene set.
size, integer specifying the number of genes in this gene set.
collection, integer containing the collection index of the collection that contains this gene set.
The collection index refers to a row of the data frame returned by fetchAllCollections.
number, integer containing the position of the gene set inside the specified collection.
The set index of the current gene set is defined by adding number - 1 to the collection's start.
If this function is called once, the data frame will be cached in memory and re-used in subsequent calls to this function.
The cached data will also be used to speed up calls to fetchSomeSets.
out <- fetchAllSets("9606")
head(out)
#> name description size collection
#> 1 GO:0000002 mitochondrial genome maintenance 11 1
#> 2 GO:0000003 reproduction 4 1
#> 3 GO:0000009 alpha-1,6-mannosyltransferase activity 2 1
#> 4 GO:0000010 trans-hexaprenyltranstransferase activity 2 1
#> 5 GO:0000012 single strand break repair 10 1
#> 6 GO:0000014 single-stranded DNA endodeoxyribonuclease activity 9 1
#> number
#> 1 1
#> 2 2
#> 3 3
#> 4 4
#> 5 5
#> 6 6