Minor issues in milopy tools about pertpy

[emdann]

Hopefully the new tutorial covers the use of contrasts to specify comparisons. I could add an example on subsetting to a certain lineage or something.

[emdann]

In principle I agree with adding the diagnostic plots to the package, although in my head that's more material for extended tutorials since it needs some guidance for interpretation. But up to you guys to decide what fits in the package and what doesn't!

Unfortunately I am going to be slumped in response-to-reviewer work for the next ~ 4 weeks.

[Zethson]

@emdann let's tackle this at the hackathon, OK?

[Zethson]

@emdann I'd be in favor of dropping the subset_samples and subset_nhoods parameters. Do you think that there's a reasonable place and a need somewhere to mention this though? Like maybe in the docs?

[xinyuejohn]

@emdann It would also be great to add plot_milo_diagnostics into milopy. I found this function is pretty helpful and has been used for several times in best-practice notebook.

[Zethson]

@emdann do you think that you'd have time to tackle this soonish?