Projects in Awesome Lists by GiatrasKon
A curated list of projects in awesome lists by GiatrasKon .
https://github.com/giatraskon/clustering-countries-socioeconomic-health-analysis
Exploration and analysis of socio-economic and health data from 167 countries using MATLAB. Application of clustering algorithms to identify development patterns, visualize disparities, and understand global trends.
calinski-harabasz-index clustering country-data data-analysis data-visualization davies-bouldin-index elbow-method feature-selection health-indicators human-development-index k-means-clustering k-median-clustering k-medoids-clustering machine-learning matlab pca pearson-correlation silhouette-score socio-economic-indicators unsupervised-learning
Last synced: 31 Mar 2025
https://github.com/giatraskon/gastric-cancer-scrnaseq-analysis
Recreation and enrichment of the gastric (GC) cancer single-cell RNA-seq (scRNA-seq) data analysis pipeline described in the "Comprehensive analysis of metastatic gastric cancer tumour cells using single‑cell RNA‑seq" by Wang B. et. al, using the raw counts matrix they provide.
average-linkage bioinformatics clustering gastric-cancer gmm-clustering go-annotation leiden-algorithm louvain-algorithm machine-learning marker-gene-identification pca python sc-rna-seq sc-rna-seq-analysis scanpy single-cell-rna-seq spectral-clustering tsne umap ward-linkage
Last synced: 31 Mar 2025
https://github.com/giatraskon/sandbox.bio-solutions
Bash scripts replicating the commands from sandbox.bio's interactive bioinformatics tutorials, organized by categories such as Data Exploration, File Formats, Quality Control, and Data Analysis.
bam-files bash bed-files bioinformatics bioinformatics-workflows command-line-tools computational-biology data-analysis data-exploration data-wrangling fasta-files fastq-files file-formats genomic-data quality-control sandbox-bio sandbox-bio-tutorials sequence-alignment unix-shell variant-calling
Last synced: 31 Mar 2025
https://github.com/giatraskon/giatraskon
Config files for my GitHub profile.
Last synced: 08 Apr 2025
https://github.com/giatraskon/algorithms-in-structural-bioinformatics-assignments
Assignments from the 'Algorithms in Structural Bioinformatics' graduate course, exploring RNA folding, molecular conformational analysis, and protein structure comparison using Python and bioinformatics tools.
alphafold2 bioinformatics biopython chimerax computational-biology conformational-analysis crude-energy-minimization jupyter-notebook protein-structure-analysis pymol python rmsd rna-folding root-mean-square-deviation sars-cov-2 secondary-structure-elements serotonin structural-bioinformatics structural-biology structure-visualization
Last synced: 31 Mar 2025
https://github.com/giatraskon/chromosome11-variantcalling-gatk
A streamlined pipeline for germline variant calling on chromosome 11 using GATK. This repository includes workflows for data preprocessing, variant discovery, and annotation, with a focus on understanding genetic variations linked to disease-associated genes.
1000genomes bam bcftools bioinformatics bwa exome-sequencing gatk gatk4-haplotypecaller genome-analysis haplotypecaller human-genome indels population-genetics reference-genome samtools snpeff snps variant-annotation variant-calling vcf
Last synced: 31 Mar 2025
https://github.com/giatraskon/overthewire-wargames-solutions
Solutions for OverTheWire wargames, each wargame has its own directory containing Bash scripts for each level's commands.
bash-scripting binary-exploitation capture-the-flag cryptography cybersecurity ethical-hacking overthewire overthewire-bandit overthewire-behemoth overthewire-krypton overthewire-leviathan overthewire-maze overthewire-narnia overthewire-natas overthewire-solution overthewire-utumno penetration-testing security-challenges wargames web-security
Last synced: 31 Mar 2025
https://github.com/giatraskon/pten-moleculardynamics-drugdesign
Comprehensive molecular dynamics simulations and drug design analysis for PTEN protein: workflows include protein dynamics, binding site detection, ligand screening, and filtering for therapeutic discovery.
bioinformatics cadd charmm chembioserver clustering computer-aided-drug-design docking drug-design glide maestro mds molecular-dynamics-simulation namd2 pten qikprop sitemap structural-biology trajectory-analysis virtual-screening vmd
Last synced: 31 Mar 2025
https://github.com/giatraskon/machine_learning_assignments
Machine learning assignments covering regression, classification, neural networks, adversarial examples, and real-time emotion detection using Python. Includes theoretical insights and practical implementations.
adversarial-examples bayesian-inference bias-variance-tradeoff cifar10 classification deep-learning emotion-recognition iris-dataset k-nearest-neighbours keras machine-learning mnist neural-networks opencv pima-indians-diabetes python regression ridge-regression scikit-learn tensorflow
Last synced: 26 Mar 2025
https://github.com/giatraskon/hyperspectral-image-clustering
Analysis of the Salinas hyperspectral image dataset using advanced clustering algorithms, focusing on identifying homogeneous regions in the image. Implementations of cost-function optimization and hierarchical clustering techniques, along with evaluations and visualizations in reduced-dimensional spaces.
adjusted-rand-index calinski-harabasz-index clustering data-visualization dimensionality-reduction fuzzy-cmeans-clustering hierarchical-clustering hyperspectral-imaging image-processing k-means-clustering machine-learning matlab pca possibilistic-clustering-algorithms probabilistic-clustering remote-sensing salinas-dataset silhouette-score spectral-bands unsupervised-learning
Last synced: 14 Mar 2025
https://github.com/giatraskon/clustering_algorithms_analytical_and_computational
Analytical and computational exploration of clustering algorithms, focusing on k-means and k-medians, with MATLAB implementations and synthetic dataset analyses.
clustering computational-mathematics data-analysis data-science data-visualization k-means k-means-clustering k-median-clustering k-medians k-medoids k-medoids-clustering machine-learning matlab noise-robustness numerical-methods outlier-detection possibilistic-clustering-algorithms statistical-analysis synthetic-data unsupervised-learning
Last synced: 21 Mar 2025