Add notebook for modularity

[Jingyan230]

Fix #16
Still couldn't figure out why the modularity of ciona is nan

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[CaseyWeiner]

You might not need to have two copies of the Modularity notebook itself. Is there a reason for the modularity folder as well?

[Jingyan230]

OK then I can remove it

[Jingyan230]

Besides that, I still cannot figure out why there are two duplicate plots

[CaseyWeiner]

Besides that, I still cannot figure out why there are two duplicate plots

It is probably because you have the visualization function returning the figure as well as plotting it with return fig. Have you tried commenting that out?

[Jingyan230]

Besides that, I still cannot figure out why there are two duplicate plots

It is probably because you have the visualization function returning the figure as well as plotting it with return fig. Have you tried commenting that out?

Thanks, that works

[CaseyWeiner]

In general I'd suggest doing a grammar and spelling check in some of the subtitle blocks, saw some minor edits needed. I'd recommend to either end every markdown block with a period or end none with one, for consistency.

For the code-blocks that output the values in mod and the nan for Ciona, I'd recommend either getting rid of those or putting a code-block before them explaining why you are outputting these values.

Other than this, it looks good to me! Interesting work