Bioinformatics in Python: DNA Toolkit. Part 8.1: Code refactoring into a bio_seq class

In this video, we begin the process of 'wrapping' our DNA Toolkit into a reusable class, bio_seq, and optimizing some of its functions for better performance and organization. This is a step towards making our toolkit more robust and easier to use.
#Bioinformatics #Python #BioTools #ObjectOrientedProgramming #CodeOptimization

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🔗 [VIDEO LINKS]:

Object-Oriented Programming (OOP) in Python - For Beginners (Tech With Tim):

HOW You Should Be Using ASSERT In Python To Catch ERRORS (Indently):

Python Set issuperset (Jakubication):

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[rebelScience]

A quick correction. At 8:15 it is not a String, but a Set() method issuperset(). And we convert DNA_Nucleotides to a set too.

[ArmyofDarkniss]

Thank you so much for your effort and dedication. Those videos are so insightful!

[juansarmiento]

Hey, 1 year after, I'm following you code and self.is_valid = self.validate() I got a problem

[michaelmoore]

Is test_dno = bio_seq() called 'assigning an import to a variable' or 'assigning a class to a variable?' or, more generally: what is it called?

[tortoise]

Another great video! Also just to let you know, 'correct' in your validation assertion comment is spelt incorrectly lol

[abdulrhmana.elshiekh]

can you make a tutorial on how to use the biopython module, it has the same as your code i hope that you can make a tutorial on the full module all of its classes and methods.
thanks

[viktordemenev]

Love your videos, but your validation function has minor problem. When Python interpreter is launched in optimisation (-O) mode, it ignores all assertions. It can lead to programs accepting invalid data. So, they are used to catch bugs or run tests, not to handle expected invalid user input or check conditions. Raising ValueError is probably best option when sequence is invalid.