deepblue_count_gene_ontology_terms {DeepBlueR} | R Documentation

## count_gene_ontology_terms

### Description

Summarize the controlled_vocabulary fields, from experiments that match the selection criteria. It is similar to the 'collection_experiments_count' command, but this command return the summarization for all controlled_vocabulary terms.

### Usage

    deepblue_count_gene_ontology_terms(genes = NULL, go_terms = NULL,
      chromosome = NULL, start = NULL, end = NULL, gene_model = NULL,
      user_key = deepblue_options("user_key"))

### Arguments

`genes` | - A string or a vector of string (Name(s) or ENSEMBL ID (ENSGXXXXXXXXXXX.X ) of the gene(s).)
`go_terms` | - A string or a vector of string (gene ontology terms - ID or label)
`chromosome` | - A string or a vector of string (chromosome name(s))
`start` | - A int (minimum start region)
`end` | - A int (maximum end region)
`gene_model` | - A string (the gene model)
`user_key` | - A string (users token key)

### Value

faceting - A struct (Map with the mandatory fields of the experiments metadata, where each contains a list of terms that appears.)

### See Also

Other Gene models and genes identifiers: `deepblue_list_gene_models`, `deepblue_list_genes`, `deepblue_select_genes`

### Examples

    gene_names = c('CCR1', 'CD164', 'CD1D', 'CD2', 'CD34', 'CD3G', 'CD44')
    deepblue_count_gene_ontology_terms (genes = gene_names, gene_model = "gencode v23")

[Package DeepBlueR version 1.14.0 Index]