susovd / bellybutton-biodiversity Goto Github PK

• About the Project
  • Built With
• Usage
• Getting Started
  • Heroku
  • Local
• Contributors
• Acknowledgements

In this project, I have built an interactive dashboard to explore the Belly Button Biodiversity dataset, which catalogs the microbes that colonize human navels.

The dataset reveals that a small handful of microbial species (also called operational taxonomic units, or OTUs, in the study) were present in more than 70% of people, while the rest were relatively rare.

I took following steps to create the dashboard.

1. Use the D3 library to read in samples.json.

2. Create a horizontal bar chart with a dropdown menu to display the top 10 OTUs found in that individual.

• Use sample_values as the values for the bar chart.

• Use otu_ids as the labels for the bar chart.

• Use otu_labels as the hovertext for the chart.

3. Create a bubble chart that displays each sample.

• Use otu_ids for the x values.

• Use sample_values for the y values.

• Use sample_values for the marker size.

• Use otu_ids for the marker colors.

• Use otu_labels for the text values.

4. Display the sample metadata, i.e., an individual's demographic information.

5. Display each key-value pair from the metadata JSON object on the page.

6. Update all of the plots any time that a new sample is selected.

Here are a couple of screenshots of the dashboard for 2 different subject ids, 940 and 1294 respectively.

• Javascript
  • Plotly

To load the dashboard, use the following steps.

1. Run a simple HTTP server with python. Open gitbash and type python -m http.server
2. Open your web broswer and go to http://localhost:8000/.

The apps is deployed to a free static page hosting service at Github pages. Please click here.

Additional reference materials:

Best-README-Template Retrieved from: https://github.com/othneildrew/Best-README-Template

Refer to the Plotly.js documentation when building the plots.

Hulcr, J. et al.(2012) A Jungle in There: Bacteria in Belly Buttons are Highly Diverse, but Predictable. Retrieved from: http://robdunnlab.com/projects/belly-button-biodiversity/results-and-data/