build_gene_list_for_pathway {YAPSA} | R Documentation

## Build a gene list for a given pathway name

### Description

Build a gene list for a given pathway name

### Usage

    build_gene_list_for_pathway(in_string, in_organism)

### Arguments

`in_string` | Name or description of the pathway
`in_organism` | Name of the taxon to be searched in

### Value

A character vector of gene names

### See Also

`keggLink`

`keggFind`

`extract_names_from_gene_list`

### Examples

       species <- "hsa"
       gene_lists_meta_df <- data.frame(
         name=c("BER","NHEJ","MMR"),
         explanation=c("base excision repair",
                       "non homologous end joining",
                       "mismatch repair"))
       number_of_pathways <- dim(gene_lists_meta_df)[1]
       gene_lists_list <- list()
       for (i in seq_len(number_of_pathways)) {
         temp_list <-
           build_gene_list_for_pathway(gene_lists_meta_df$explanation[i],
                                       species)
         gene_lists_list <- c(gene_lists_list,list(temp_list))
       }
       gene_lists_list

[Package YAPSA version 1.18.0 Index]