This repository contains a custom python script that finds citations that include the name of a gene along with a condition provided by the user. P.e brca2+AND+(MIGRATION)
Help:
usage: find_articles_pubMed.py [-h] [-v] [-c CONDITION [CONDITION ...]] [-file FILE] [-out OUT]
This program creates a csv file with the number of match found for each gene include in the gene file list.
optional arguments:
-h, --help show this help message and exit
-v, --version show program's version number and exit
-c CONDITION [CONDITION ...], --condition CONDITION [CONDITION ...]
Conditions to be matched according to pubmed search syntax. p.e "(METASTASIS)+OR+(INVASION)"
-file FILE, -input_file FILE
File name where the result data are dumped
-out OUT, -output_file OUT
File name where the result data are dumped
Repository also contains the list of genes used, and the exact commands that were used for the analysis.