# 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)

## September 15

- Distributions
- Hypothesis tests
- Sampling

[**Exercise 2.** Distributions & Tests](https://hackmd.io/@ColbyBI377/exercise2_Htests)

## September 22

- Univariate ANOVA
- Data curation

[**Exercise 3.** Data Curation & ANOVA](https://hackmd.io/@ColbyBI377/exercise3)

## September 29

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

[**Exercise 4.** Data Acquistion](https://hackmd.io/@ColbyBI377/exercise4)

## October 6

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

[**Exercise 5.** Procrustes alignment and distance](https://hackmd.io/@ColbyBI377/exercise5)

## October 20

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

[**Exercise 6**. PCA](https://hackmd.io/@ColbyBI377/exercise6)

## October 27

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

[**Exercise 7**. Modeling](https://hackmd.io/@ColbyBI377/exercise7)

## November 3

- Modularity
- Disparity
- Phylogeny

[**Exercise 8**. Modularity, Disparity, Phylogeny](https://hackmd.io/@ColbyBI377/exercise8)

## November 10

- Colorimetry
- Residual plots
- Alignment of landmarks in jointed structures

**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/)

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