Baltzell - Programs

Programs

1. Execute myCoGe

• Shell script that unifies the myCoGe pipeline and allows for detailed error reports to be generated and emailed after each iteration.

• https://github.com/asherkhb/myCoGe/blob/master/execute_mycoge.sh

2. SNPScraper

• Webscraper for obtaining SNP variant data from the Personal Genome Project.

• https://github.com/asherkhb/myCoGe/blob/master/snpscraper.py

3. myCoGe

• Python library of functions necessary for the myCoGe pipeline.

• https://github.com/asherkhb/myCoGe/blob/master/myCoGe.py

4. Initiate

• Python script that performs the bulk of the myCoGe pipeline.

• https://github.com/asherkhb/myCoGe/blob/master/initiate.py

5. Finalize

• Python script to perform final functions, generate reports, email reports, and clean up system after each run.

• https://github.com/asherkhb/myCoGe/blob/master/finalize.py

6. BatchLoad

• Python script to obtain initial set of data, allows for errors due to large processing volume.

• https://github.com/asherkhb/myCoGe/blob/master/batch_downloader.py