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Hi there šŸ‘‹ this is Nermin!

This is the new scientific, technical, and code profile for all my essential research studies at academic institutes and technical projects with the WHO!

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Introduction

Hi there šŸ‘‹ this is Nermin!Again!

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About Me

šŸ”­ Iā€™m working on adding elements and repositories to this new GitHub interface, as I lost my old one. I am prioritizing repositories that use genomic data, drug use registry data, and the global burden of disease analytics. Some repositories will be ready this summer, and the others will be ready by the second half of 2024. Contact me if you need any further information on my previous projects that are still missing here.

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How to Reach Me

šŸ“« Feel free to connect with me for collaboration or chat about potential opportunities. LinkedIn

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Epidemiological Statistical Tests and Analyses

šŸ›  Chi-Square Test T-Test ANOVA Regression Analysis Survival Analysis Cox Model MLRA

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Machine Learning Techniques

Supervised Learning Techniques

Linear Regression Logistic Regression SVM Decision Trees Random Forests Neural Networks

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Unsupervised Learning Techniques

K-Means Clustering Hierarchical Clustering PCA Anomaly Detection Autoencoders

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Data Sources and Expertise

šŸ› 

  • WHO: GHO, GBD, European Health for All database (HFA-DB) data source GHO GBD HFA-DB

  • The World Bank: World Development Indicators, SDGs World Development Indicators SDGs

  • Danish population and health registries: DST hosted population and health registries, including the national patient's registry, medication datasets, RKKP databases, among others Danish Registries

  • Swedish population and health registries: hosted population and health registries, including the national patients registry, medication databases, among others Swedish Registries

  • Finnish population and health registries: hosted population and health registries, including the national patients registry, medication databases, among others Finnish Registries

  • IHME: global burden of disease estimates databases IHME GBD

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Epidemiological Toolbox

šŸ› 

  • Pharmacological clinical data analyses: MATLAB

  • Pharmacoeconomics and Research Software: STATA SPSS WinBUGS
    PSPP
    G*Power

  • Statistical Analysis and (genetic) Epidemiology Software: SOFA Statistics OpenSAGE Epi Info RevMan

  • Pharmacoepi and bioinformatics software/packages/libraries (selected examples): nlmixr pandas numpy scikit-learn TensorFlow

  • Compositional Data Analysis:

CoDa Logo

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Facilities

  • Access to national population and health registries in Nordic countries: Certified Statistics User

  • High-performance computing (HPC) in Denmark: Danish Supercomputer

  • Data and High-performance computing (HPC) Services for Bioinformatics in Denmark: Genome Center Supercomputer

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Data Science Tools

  • Languages and data science tools: R R Shiny Python JavaScript Azure DevOps Visual Studio Visual Studio Code

  • Interactive and scientific computing: Jupyter Anaconda

  • Database Technologies: Neo4j Cypher Graph Algorithms

  • Data Visualization and Web Development Tools : Dash Plotly Tableau ArcGIS

  • Containerization and Orchestration Tools : Docker Kubernetes

  • NVIDIA and GPU based viz: RAPIDS

  • Version Control Systems : Git GitHub

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Operating Systems

macOS Windows Linux

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Teaching Portfolio

šŸŽ“ Here, you'll find details about the courses I teach, including syllabi, teaching philosophies, and student testimonials.

I have extensive experience teaching a wide range of subjects within the field of public health and epidemiology. Below are the courses I've instructed, along with key topics covered in each. I will add more details in June 2024

Epidemiology and Statistics šŸ“– Curriculum Overview

Epidemiology and Statistics

Clinical Global Infectious Diseases šŸ“– Curriculum Overview

Clinical Global Infectious Diseases

Oncology and Public Health šŸ“– Curriculum Overview

Oncology and Public Health

Advanced Statistical Analysis of Time-to-Event Data šŸ“– Curriculum Overview

Advanced Statistics

Master Thesis šŸ“– Curriculum Overview

Master Thesis

Masterclass in Public Health šŸ“– Curriculum Overview

Masterclass in Public Health

Bachelor Project šŸ“– Curriculum Overview

Bachelor Project

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Professional Training and Certifications šŸ“š Course Materials

I have provided instruction and consultation to healthcare providers on the following topics: I will add slides and codes by early June 2024

  • CPHQ Certification
  • Patient Safety
  • Leadership and Organizational Culture
  • Performance Improvement
  • Clinical Risk Management
  • Utilization Management
  • Total Quality Management
  • Information Technology
  • Healthcare Analytics

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Selected publications

PubMed Publications

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Current Learning

  • šŸŒ± Iā€™m currently learning Biophysics.

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Collaboration Opportunities

  • šŸ‘Æ Iā€™m looking to collaborate on Durg use, side effects and interactions, epigenomics and transcriptomic disease profiling, healthcare analytics
  • šŸ¤” Iā€™m looking for help with fast, scalable, interactive big data viz
  • šŸ’¬ Ask me about anything related to my profile or repositories
  • šŸ˜„ Pronouns: She
  • āš” Fun fact: I love watching horror movies (not the bloody ones), such as the ones that are bringing your childhood fears, such as The Tooth Fairy.

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GitHub Stats

šŸŒ± Your GitHub Stats

Top Languages

Badge

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Highlighted Projects:

Visitor Count

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Nermin Ghith's Projects

ancom icon ancom

R scripts for Analysis of Composition of Microbiomes (ANCOM).

ancom-bc-code-archive icon ancom-bc-code-archive

Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction"

argprofiler icon argprofiler

A pipeline for for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets

bio-pharmaceutical-analytics icon bio-pharmaceutical-analytics

Design of experiments; safety data analytics tools; Intelligence solutions for clinical development, PK-PD models and ; QC processes .... etc

bulkdgd icon bulkdgd

Code, documentation, and tutorial for the DGD model trained on bulk RNA-Seq data.

camisim icon camisim

CAMISIM: Simulating metagenomes and microbial communities

corncob icon corncob

Count Regression for Correlated Observations with the Beta-binomial

covid icon covid

COVID 19 - Convert a Jupyter Notebook into a Dashboard

d3 icon d3

Bring data to life with SVG, Canvas and HTML. :bar_chart::chart_with_upwards_trend::tada:

dash-docs icon dash-docs

:book: The Official Dash Userguide & Documentation

dash-px icon dash-px

Simple Dash app using Plotly Express

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