Review November 16

[iamciera]

To-do

From our in person meeting

• [x] README.md that lists the code in code directory example: https://github.com/DiscoveryDNA/TFBS_presence.
• [ ] definitely make a note about the discrepancy between calling all the data: https://github.com/cabinetofcuriosity/vertnet_explore/blob/master/code/1_Obtaining_Vertnet_Data.ipynb
• [x] Contact someone at Vertnet, David Bloom, no response
• [x] Contact Michelle Koo about historical context of database.
• [ ] Talk about the problem in discrepancy of returning data
• [ ] Deal with serving the data in notebook 2 somewhere else.
• [x] Can you send me how to link to an interactive plot on plotly server.

Review while going over code.

Notebook 1: 1_Obtaining_Vertnet_Data.ipynb

• [ ] Excellent introduction! Can you add some information why you were interested in this database?
• [ ] It would be great to add a brief conclusion.

Notebook 2: 2_Focusing_Vertnet_Data.ipynb

• [ ] I made notes in the notebook. They all start with "Ciera:" Please look over.
• [ ] There is an error when I try to run the plotly plots. Never really worked with plotly, but do you know what this is about?

  PlotlyError: Because you didn't supply a 'file_id' in the call, we're assuming you're trying to snag a figure from a url. You supplied the url, '', we expected it to start with 'https://plot.ly'. Run help on this function for more information.

• [ ] check to see if plotly graphs can be embedded into notebook

[iamciera]

• [ ] Look into possibility to work on the Discovery DNA project (Ciera)
  • [ ] Can you add the links to the interactive.
  • [ ] Talk to Plotly (Ciera) about getting students unlimited access.
  • [ ] Talk to Rebecca to set up meeting about scaling the colors on continuous color plots.