# Modeling Biological Problems in Computer Science: A Case Study in Genome Assembly

## TL;DR

This paper demonstrates how to translate biological questions into computational models, using genome assembly as a case study, highlighting the modeling process and common pitfalls in bioinformatics algorithm development.

## Contribution

It provides a detailed tutorial on modeling biological problems in computer science, illustrating the step-by-step process with practical examples and failed attempts.

## Key findings

- Clarifies the modeling process for genome assembly
- Highlights common challenges and pitfalls in bioinformatics modeling
- Provides a practical framework for translating biological questions into algorithms

## Abstract

As computer scientists working in bioinformatics/computational biology, we often face the challenge of coming up with an algorithm to answer a biological question. This occurs in many areas, such as variant calling, alignment, and assembly. In this tutorial, we use the example of the genome assembly problem to demonstrate how to go from a question in the biological realm to a solution in the computer science realm. We show the modeling process step-by-step, including all the intermediate failed attempts.