MSc Project Portfolio

This repository serves as a central hub for all my MSc projects.

---

First Semester

Bioinformatics

Professors: Martin Reczko - Alexandros Dimopoulos
Projects use bioinformatics tools, Bash

• Final project
  • Summary: Germline short variant discovery (SNPs + Indels) with gatk.
  • Link: https://github.com/KonsKons26/bioinformatics_project

Biostatistics

Professor: Dionisios Linardatos
Projects in MATLAB

• First Exercise

  • Summary: General hypothesis tests.
  • Link: https://github.com/KonsKons26/biostat_ex1

• Second Exercise

  • Summary: PCA, ANOVA, hypothesis tests.
  • Link: https://github.com/KonsKons26/biostat_ex2

Clustering Algorithms

Professor: Konstantinos D. Koutroumbas
Projects in MATLAB

• Second assignment

  • Summary: Clustering of countries based on socioeconomic data.
  • Link: https://github.com/KonsKons26/clust_algos_a2

• Final project

  • Summary: Clustering of the pixels of a hyperspectral image to plant varieties.
  • Link: https://github.com/KonsKons26/clust_algos_project

Machine Learning

Professor: Stavros Perantonis
Projects in Python

• First Project

  • Summary: Construction of classical ML algorithms.
  • Link: https://github.com/KonsKons26/ml_assignment_1

• Second Project

  • Summary: Classification of human actions using images.
  • Link: https://github.com/KonsKons26/ml_assignment_2

---

Second Semester

Algorithms in Molecular Biology

Professor: Theodore Dalamagas
Project uses Python
NOTE: I don't consider this project completed, I plan on continuing to improve it.

• Final Project
  • Summary: recreation of the DALI algorithm.
  • Link: https://github.com/KonsKons26/py-dali

Algorithms in Structural Bioinformatics

Professors: Ioannis Emiris - Evangelia D. Chrysina
Project uses Python

• First assignment

  • Summary: 3D structure inspection and comparisons.
  • Link: https://github.com/KonsKons26/algos_in_struct_bio_a1

• Second assignment

  • Summary: RNA folding and NMR data.
  • Link: https://github.com/KonsKons26/algos_in_struct_bio_a2

• Final Project

  • Summary: Kinase conformation classification using topological features.
  • Link: https://github.com/KonsKons26/MLtopKin

Image analysis and Processing

Professor: Vassilis Katsouros
Project uses Python

• First assignment

  • Summary: Image enhancement and detection of features.
  • Link: https://github.com/KonsKons26/Img_analysis_assignment_1

• Second assignment

  • Summary: Image classification.
  • Link: https://github.com/KonsKons26/Img_analysis_assignment_2

Machine Learning in Computational Biology

Professor: Elias S. Manolakos
Project uses Python

• First assignment

  • Summary: Regression task.
  • Link: https://github.com/KonsKons26/mlcb-a1

• Second assignment

  • Summary: Repeated nested cross validation.
  • Link: https://github.com/KonsKons26/mlcb-a2

• Final Project

  • Summary: Supervised and unsupervised machine learning on single-cell RNA data.
  • Link: https://github.com/KonsKons26/MLinCompBioFinalProject