STMO-ZOO: Exam Project; de novo detection of design patterns in proteins using evolutionary algorithms
Our Code provides a tool to detect conserved motifs in a set of proteins sequences. Protein sequences must be provided in FASTA format. Output is the peptide sequence of the discovered motif with the start and stop place corresponding to the consensus sequence.
Have fun reading the Pluto Notebook!
Welcome to the STMO zoo! This is your final assignment for the course Selected Topics in Mathematical Optimization. Your goal is to implement an optimization method in Julia and contribute this to this repository. To pass, you have to:
- fork this repo and create a pull request;
- add a module to
srcwith at least one function - add at least one unit test to the folder
test; - document all your functions and add a page to the documentation page;
- make a notebook in Pluto and add it to
notebooks; - perform a small code review of two other students.
Depending on the project you choose some of these individual assignments might be really minimalistic, with other parts larger. For example, if you want to develop an application, say solving the graph coloring problem with Tabu Search, you might have only a single function in the source code (e.g., generating an instance) but have a fairly large notebook with a tutorial. On the other hand, if you work on a method, e.g., implementing Bee Colony Optimization, you might have many functions in the source code, while your notebook is only a demonstration on the test functions.
