First steps with Python in Life Sciences

Last update: Jan 08, 2023

Overview

First steps with Python in Life Sciences

This course material is part of the "First Steps with Python in Life Science" three-day course of SIB-training and is addressed to beginners wanting to become familiar with the Python syntax, environment, and the most common commands.

This course material provides an introduction to python and jupyter notebooks (a web based notebook system for creating and sharing computational documents) in an interactive manner.

prerequisite installation

You can find tips and instructions to ensure you have installed all the required software before starting the course.

course material organization

The course revolves around a sery of jupyter notebooks which take you on your first steps in you python journey.

Each jupyter notebook interleaves theory and examples of codes. We heartily recommend you execute and play around with these bits of code as you follow along : in programming, perhaps even more than anywhere else, practice makes perfect.

Additionally, each notebook is associated with a number of exercises (often in a separate notebook) of varying difficulty, with associated corrections.

If you are attending this course with a teacher (or if you are just curious), you can take a look at our schedule. In short, lessons 00 to 04 deals with generalistic aspect of the python language, while notebooks 05 or 08 present some of the most common modules used in data analysis and/or life sciences.

The notebooks/ folder contains each lesson:

00_jupyter_setup
01_python_basics
02_python_structures
03_reading_writing_files
04_modules
05_module_pandas : handle tabular data data-frames with pandas
06_module_matplotlib : create nice graphics and plots with matplotlib
07_module_biopython : do all kind of bioinformatics with [biopython]](https://biopython.org/)
08_module_numpy_and_scipy : fast numerical computations with numpy + a bit of statistics with scipy.stats

Exercise notebooks:

The data used in the practicals can be found in the data notebooks/data folder, and solutions codes can be found in the notebooks/solutions/ folder (NB: micro-exercises do not have a correction).

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Comments

Module 2-create your own functions - text columns

Your tutorials are fantastic! minor format issues: the multiple column format in some pages (ex: module 2 in python training) collapse the text and making it unreadable. Hope to see it fixed to complete the tutorial! thank you.

opened by catalicu 1

Releases(October2022)

October2022(Oct 12, 2022)

course material for the October 2022 edition of the SIB course "First Steps with Python in Life Sciences"
Source code(tar.gz)
Source code(zip)
May2022(May 12, 2022)

Release for the May2022 edition of the course in Basel
Source code(tar.gz)
Source code(zip)

First steps with Python in Life Sciences

Related tags

Overview

First steps with Python in Life Sciences

prerequisite installation

course material organization

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Comments

Module 2-create your own functions - text columns

Releases(October2022)

October2022(Oct 12, 2022)

May2022(May 12, 2022)

Owner

SIB Swiss Institute of Bioinformatics

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