penguins.ipynb

Kernel: Python 3 (ipykernel)

---
title: Palmer Penguins
---

import pandas as pd
import altair as alt
import seaborn as sns
from matplotlib import pyplot as plt

Data from Palmer Penguins R package

penguins = pd.read_csv("https://pos.it/palmer-penguins-github-csv")

#| label: species-counts
penguins.groupby("species").size().reset_index(name = "count")

colors = ["#FF8C00", "#A020F0", "#008B8B"]
sns.set_palette(colors, n_colors = 3)

#| fig-alt: A density plot of bill ratio by species. 
penguins["bill_ratio"] = (
   penguins["bill_length_mm"] / penguins["bill_depth_mm"] 
)
sns.displot(penguins, 
            x = "bill_ratio", 
            hue = "species", 
            kind = "kde", fill = True, aspect = 2, height = 3)
plt.show()

#| label: fig-bill-marginal
#| fig-cap: Marginal distributions of bill dimensions
#| fig-subcap: 
#|   - Gentoo penguins tend to have thinner bills,
#|   - and Adelie penguins tend to have shorter bills.
#| fig-alt:
#|   - Density plot of bill depth by species.
#|   - Density plot of bill length by species.
#| layout-ncol: 2

sns.displot(penguins, 
            x = "bill_depth_mm", 
            hue = "species", 
            kind = "kde", fill = True, 
            aspect = 2, height = 3)
plt.show()
sns.displot(penguins, 
            x = "bill_length_mm", 
            hue = "species", 
            kind = "kde", fill = True, 
            aspect = 2, height = 3)
plt.show()

scale = alt.Scale(domain = ['Adelie', 'Chinstrap', 'Gentoo'],
                  range = colors)

#| label: fig-bill-scatter
#| fig-cap: >
#|   A scatterplot of bill dimensions for 
#|   penguins, made with Altair.
alt.Chart(penguins).mark_circle(size=60).encode(
    alt.X('bill_length_mm',
        scale=alt.Scale(zero=False)
    ),
    alt.Y('bill_depth_mm',
        scale=alt.Scale(zero=False)
    ),
    color = alt.Color('species', scale = scale),
    tooltip=['species', 'sex', 'island']
)