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Bioinformatics Algorithms

Charging Station: Generating the Neighborhood of a String

Explore generating the d-neighborhood of a DNA string by identifying all k-mers within a specific Hamming distance. Understand recursive and iterative approaches to build these neighborhoods, enhancing your ability to compare genetic sequences and solve bioinformatics challenges.

We'll cover the following...

The d-neighborhood

Our goal is to generate the d-neighborhood Neighbors(Pattern, d), the set of all k-mers whose Hamming distance from Pattern doesn’t exceed d. We’ll first generate the 1-neighborhood of Pattern using the following pseudocode:

  ImmediateNeighbors(Pattern)
    Neighborhood ← the set consisting of the single string Pattern 
    for i =
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