This is an extensive bioinformatics project that I completed for my graduate practicum. The final product is an interactive browser-based application that can search for/filter information on the oral microbiome of dental patient samples.
NOTE: The Python scripts used to parse and reformat the RDP Classifier, Clinical and Taxonomy data are located in the repo "Python--Bioinformatics" under the directory "PRACTICUM--Oral_Microbiome_Browser" (link: https://github.com/BryanChim/Python--Bioinformatics/tree/master/PRACTICUM--Oral_Microbiome_Browser)
If you have Python-Django installed on your system, you can try out this browser with the following steps:
-
Clone this repository to your computer
-
Open your command-line/shell and navigate to said repository on your computer
-
Enter >python manage.py runserver
-
Open your web browser of choice, and navigate to the URL: http://127.0.0.1:8000/
-
Enjoy!
-
If you're unable or do not wish to run the application, you can view screenshots of the interface in the images "Django Pages.jpg" and "Django Pages2.jpg"
-
For a pictoral representation of the MySQL tables created in the Microbiome database, see the image "models and keys.jpg"
-
For an in-depth report on the background, planning and workflow of the project, please see: "Oral Microbiome Project Report.docx"