Standardize plot elements

[sdhutchins]

I think it'd be great if we came up with a custom format for the plots as well to improve the cohesiveness of all of the figures.

Below is currently what I've got going...

Mainly, I'm interested in cohesive aesthetics including:

• location of title and legends (title on top right or center and should the title have a line under it?)
• Labels of data
• Font type
• Axes lines (mainly alpha diversity vs correlation - how they look)

Things won't be perfect between the heat trees and other plots, but I think we can standardize certain elements.

I use the below code on my plots:

    theme(
      text = element_text(size = 11, family = "Arial", face = "bold"),
      axis.text.x = element_blank(), axis.ticks = element_blank(), panel.grid.major = element_blank(), panel.grid.minor = element_blank(),
      strip.background = element_rect(fill = "white"), strip.text = element_text(colour = "black"), panel.background = element_blank()
    ) +
    xlab(xlabel) + ggtitle(title) +
    annotate("segment", x = Inf, xend = -Inf, y = Inf, yend = Inf, color = "black", lwd = 1) +
    scale_y_continuous(breaks = scales::pretty_breaks(n = 25))

[grabear]

I need to work on this for my plots. Have you done any more with this? @sdhutchins

I've also looked at https://github.com/dgkf/ggpackets as an option recently, but that package is pretty underdeveloped it seems.

[sdhutchins]

@grabear I played around with your metacoder heat trees and it's a little harder to get them into this format which may not even be as helpful because of the metacoder package's base plot. There are ways to remove the title and re-add one, but it was just not looking as good imo.

I think your correlation plots will be easier to manipulate.

[sdhutchins]

Per discussions with @xiaoumc, removing titles from plots is desired so we can just make that a default parameter (and I think it is on most of the plots).

Otherwise, colors in the ordination, metacoder, and alpha diversity plots are in sync with each other.

Legends and legend titles need tweaking for mainly alpha diversity.