# BI377 Morphometry HackMD Space

###### tags: `main`


Fall 2025 [Syllabus](https://github.com/aphanotus/BI377.Morphometry?tab=readme-ov-file#bi377--morphometry-the-study-of-form)

This page will link to in-class activities and out-of-class exercises.

## September 8

- Introduction to [HackMD](https://hackmd.io/) and [Markdown](https://www.markdownguide.org/)
- [R tutorial](https://hackmd.io/@ColbyBI377/Rtutorial) / refesher

[**Exercise 1.** Markdown & R](https://hackmd.io/@ColbyBI377/exercise1_R) - Solutions

## September 15

- Distributions
- Hypothesis tests
- Sampling

**Exercise 2.** Distributions & Tests

## September 22

- Permutation
- Univariate ANOVA
- Data curation

**Exercise 3.** Data Curation & ANOVA

## September 29

- Geometric Morphometrics
- GMM workflow
- Landmark selection
- Elliptical Fourier analysis

**Exercise 4.** Data Acquistion

## October 6

- Generalized Procrustes Alignment (GPA)
- Modularity
- GPA with jointed structures
- Disparity

**Exercise 5.** Procrustes alignment and distance

## October 20

- Morphospace
- Ordination
- PCA and other methods of dimensionality reduction
- Kendall’s tangent shape space projection

**Exercise 6**. PCA

## October 27

- Linear regression
- Permutation-based Procrustes ANOVA
- [Tree thinking](https://www.science.org/doi/10.1126/science.1117727#supplementary-materials)

**Exercise 7**. Modeling

## November 3

- Modularity
- Disparity
- Phylogeny

**Exercise 8**. Modularity, Disparity, Phylogeny

## November 10

- Colorimetry
- Residual plots

November 13: Supplemental video lecture on eliptical Fourier analaysis

**Exercise 9**. Planning final projects

## November 17

- The history and social context of morphometry

**Exercise 10**. Data gathering

## December 1

- Preparation of final presentations

[Guidelines for Final Projects](https://github.com/aphanotus/BI377.Morphometry/blob/main/guidelines.for.final.projects.md#guidelines-for-final-projects)

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## Quick Links

- [BI377 Moodle](https://moodle.colby.edu/course/view.php?id=33250)
- [BI377 HackMD](https://hackmd.io/@ColbyBI377/landingpage)
- [rstudo.colby.edu](https://rstudio.colby.edu/)