A k-mer is a contiguous sequence of k nucleotides (the building blocks of DNA) in a genome. Biologists often use k-mers to identify patterns or motifs in genomic sequences, such as repeated sequences or conserved regions. Let’s build an algorithm to do this.
Tag: Bioinformatics for beginners
In this article, we are going to take a look at one of the algorithms we wrote in Genome Toolkit series, Part 2, and attempt to optimize it.
In the previous article (Part 2 here), we wrote our first Genome Toolkit algorithm. Even though, it was a very simple algorithm to help us search for repeating patterns (k-mers) in a DNA/Genome sequences, and it seemed to worked correctly, we actually had a bug in it. Let’s take a look at what it is, and how we can fix it.
Bioinformatics with Python Cookbook: Use modern Python libraries and applications to solve real-world computational biology problems, 3rd Edition.
A guide and advice on how to get started, or how to transition into Bioinformatics for people with biology or programming backgrounds.
In this article, we conclude our work on a minimal set of functions to work with DNA. We will add the last three functions that
In this article we install and set-up VSCode/VSCodium editor and a few plugins to make running any code easy, with just a key combination.