pubmed.mineR (version 1.0.21)

gene_atomization: To Extract Genes from the Abstracts

Description

gene_atomization will automatically fetch the genes (HGNC approved Symbol) from the text and report their frequencies. presently only HGNC approved symbols are used.

Usage

gene_atomization(m)

Value

A tab delimited table containing gene name and their frequencies of occurrence.

Arguments

m

An S4 object of class Abstracts

Author

S.Ramachandran, Jyoti Rani

Details

The function writes a text file with file name "data_table.txt". The function gene_atomization() is used to obtain the name of genes along with their frequencies of occurence.

Examples

if (FALSE) gene_atomization(myabs)
## here myabs is an S4 object of class 'Abstracts'containing the abstracts
## uses older version of HGNC data (https://www.genenames.org/) by default. 
## users may also use other functions such as official_fn and related 
## family of functions for deeper data mining.