![<center><h1> Repository for the 2nd Annual Undergraduate Quantitative Biology (UQ-bio) Summer School. </h1></center>](https://github.com/MunskyGroup/uqbio2021/raw/main/templates/2022/intro.png?raw=true)
Authors: Dr. Brian Munsky, Michael May, Linda Forero, Luis Aguilera, William Raymond, Zachary R. Fox, Lisa Weber, Kaan Ocal, and Huy D. Vo.
Module 0 (Online) : Getting Started with Basic Scientific Computing in Python.
Date (MST) |
Location |
Description |
Link |
May 15-31 |
Online |
Intro to Python: Hello (Python) World, Types, Arithmetic Operations, Iterables, and Containers |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
May 15-31 |
Online |
Intro to Python: Google Colab environment setup and navigation |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
May 15-31 |
Online |
Intro to Python: importing packages, classes/modules, os navigation, reading files |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
May 15-31 |
Online |
Intro to Python: Loops, Ranges, Functions, Lambdas, List Comprehension |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
May 15-31 |
Online |
Intro to Python: Matplotlib visualization |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
May 15-31 |
Online |
Intro to Python: NumPy and Linear Algebra Review |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
Module 1 : Single-Cell Optical Microscopy Experiments and Image Processing.
Date (MST) |
Location |
Description |
Link |
June 1, 10:15-12:15 |
C146 - Academic Village |
1.1 – Python Review and Basic Image Processing - Dr. Luis Aguilera |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
June 2, 10:15-12:15 |
C146 - Academic Village |
1.2 – Python Tutorial for Cell Segmentation and smFISH – Dr. Luis Aguilera |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
June 3, 10:15-12:15 |
C146 - Academic Village |
1.3 – Python Tutorial for Particle Tracking – Dr. Luis Aguilera |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
Module 2 : Multivariable Statistics and Machine Learning for Single-Cell Data.
Date (MST) |
Location |
Description |
Link |
June 6, 10:15-12:15 |
C146 - Academic Village |
2.1.A – Python Tutorial for Basic Probability Distributions and Sampling – Dr. Ania Baetica |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
June 6, 10:15-12:15 |
C146 - Academic Village |
2.1.B – Python Tutorial for basic Multivariate Statistics – Dr. Ania Baetica |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
June 7, 10:15-12:15 |
C146 - Academic Village |
2.2 – Python Tutorial for Supervised Learning – Will Raymond |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
Module 3 : Stochastic Simulations of Single-Cell Gene Regulatory Processes.
Date (MST) |
Location |
Description |
Link |
June 8, 10:15-12:15 |
C146 - Academic Village |
3.1 – Python Tutorial for Stoichiometries and Propensity Functions – Michael May |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
June 9, 10:15-12:15 |
C146 - Academic Village |
3.2 – Python Tutorial for Stochastic Simulation Algorithm – Joshua Cook |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
June 10, 10:15-12:15 |
C146 - Academic Village |
3.3 – Python Tutorial for Totally Asymmetric Exclusion Processes – Will Raymond |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
Module 4 : Master Equation Analyses of Single-Cell Gene Regulatory Processes.
Date (MST) |
Location |
Description |
Link |
June 13, 10:15-12:15 |
C146 - Academic Village |
4.1 – Python Tutorial for Finite State Projection Analyses – Michael May |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
June 14, 10:15-12:15 |
C146 - Academic Village |
4.2 – Python Tutorial for Model Optimization and Data Fitting – Dr. Zachary R Fox |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
June 15, 10:15-12:15 |
C146 - Academic Village |
4.3 – Python Tutorial for MCMC and Metropolis Hastings Analysis – Dr. Brian Munsky |
![Open In Colab](https://camo.githubusercontent.com/96889048f8a9014fdeba2a891f97150c6aac6e723f5190236b10215a97ed41f3/68747470733a2f2f636f6c61622e72657365617263682e676f6f676c652e636f6d2f6173736574732f636f6c61622d62616467652e737667) |
![License](https://camo.githubusercontent.com/2c9d35079d2be27b8d22ec33d2e0e45f76f0521dd7faff71cb99461112781759/68747470733a2f2f696d672e736869656c64732e696f2f62616467652f4c6963656e73652d4253445f332d2d436c617573652d626c75652e737667)