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Welcome to The Multilingual Quantitative Biologist!

Computing

Introduction & prerequisites
UNIX and Linux
Shell scripting
Version control with Git
Scientific documents with \(\LaTeX\)
Biological Computing in Python
- Object-Oriented Programming
Biological Computing in R
AI-assisted programming in biology

Basic Data Analyses and Statistics

Introduction & prerequisites
Data Management and Visualization in R
Experimental design and data exploration
Basic hypothesis testing
Linear Models: regression
Linear Models: Analysis of variance
Linear Models: Multiple explanatory variables
Linear Models: Multiple variables with interactions
Model simplification

Advanced E&E Modelling and Statistics Pre-work

Introduction & prerequisites
EnE Modelling and Advanced Data Science Pre-work

Ecological & Evolutionary Modelling

Introduction & prerequisites
The Metabolic Basis of Ecology and Evolutionary dynamics
Single Populations
- From consumer–resource dynamics to logistic growth
- Populations: Practicals
Species interactions
Competitive dynamics
- Competitive Dynamics: Practicals
Predator–prey dynamics
- Predator–prey dynamics: Practicals
Epidemiological dynamics
- Epidemiological dynamics: Practicals

Advanced Data Analyses and Statistics

Introduction & prerequisites
Exploring a soil microbiome in R
Generalised Linear Models
Model Fitting using Non-linear Least-squares
- Nonlinear least squares (NLLS) in Python
- Microbial Growth rates in R
Model Fitting using Maximum Likelihood
Bayesian inference for biological data

Assignments and Assessments

Introduction & prerequisites
MQB Coursework Assessment
- Computing Bootcamp Rubric
The Computing Miniproject
- Computing MiniProject Rubric

Appendices

Introduction & prerequisites
Tooling and Environments
Linux Setup and Ubuntu Administration
Data Analysis in Python (Optional)
- Data analyses with Python & Jupyter
Maths and Quantitative Foundations
- Mathematical models in Jupyter
- Maths for Biologists
Performance, Scaling, and Compute
- Introduction to High-Performance Computing (HPC)

References

References

Repository
Open issue

Index

By MulQuaBio collective!

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