Download pathway tool module from github
cd /var/www/html/youSiteFolder/sites/all/modules/
git clone https://github.com/tripal/tripal_pathway
Install pathway tool through "Administration of Modules" of Drupal.
Or install pathway tool using command:
drush pm-enable tripal_pathway
The pathway file is produced by processing the output of PathwayTools. First, we use PathwayTools to predict the pathways for the annotated genes. The will generate a file named pathways.col includes predict pathways for genes. Next, we retrieve information from pathways.col to generate the pathway file. The pathway file is tab-delimit file which include 4 columns. The format of pathway file:
- Gene ID
- Functional Description
- Pathway ID
- Enzyme Name
Please check the example of pathway file under: example/wm_97103_kept.pwy
Then load the pathway file to database.
Home -> Add Content -> Pathway File