gene_list_generation {nanotatoR} | R Documentation |
Extracting genes for phenotype/diseases from NCBI.
gene_list_generation(method_entrez = c("Single", "Multiple", "Text"), termPath, term, outpath, thresh = 5, returnMethod = c("Text", "dataFrame"))
method_entrez |
character. Input Method for terms. Choices are "Single","Multiple" and "Text". |
termPath |
character. Path and file name for textfile. |
term |
character. Single or Multiple Terms. |
outpath |
character. Path where gene lists are saved. |
thresh |
integer. Threshold for the number of terms sent to entrez. Note if large lists are sent to ncbi, it might fail to get processed. Default is 5. |
returnMethod |
Method of returning output. Options, Text or data.frame. |
Text files containg gene list and terms associated with them are stored as text files.
terms="Muscle Weakness" genes <- gene_list_generation(method="Single", term=terms, returnMethod="dataFrame")