Skills

• Collaboration & Communication:
• Working in an independent manner and also in cross-functional teams (clinicians, wet-lab scientists, data scientists, software engineers, UX/UI designers)
• Gathering, evaluating and synthesizing of information into articles
• Project management and mentoring
• Good at communication and presentation skills
• Good at problem solving and adaptability
• Curious and loves to learn new things

• Programming & Tools:
  • Python - NumPy, pandas, scikit-learn, seaborn, PyTorch, Matplotlib, Plotly, Biopython
  • R - CRAN, Bioconductor
  • RMarkdown, Jupyter Notebooks
  • unit testing - R/testthat, Python/unittest/pytest
  • bash
• Machine Learning:
  • Statistical tests: incl. t-tests, Wilcoxon
  • Regression: incl. linear regression, logistic regression, Cox/survival analysis, elastic net/ridge/LASSO
  • Classification: incl. random forests, XGBoost, SVM, Linear Discriminant Analysis (LDA)
  • Clustering: K-means, EM algorithm
  • Probabilistic models: Hidden Markov models (HMMs), linear Gaussian state-space models
  • Dimensionality reduction & factorization: PCA, t-SNE, MOFA, NMF
  • Sampling & optimization: replica exchange Monte Carlo
  • Deep learning: variational autoencoders (VAEs), CNNs, transformers, retrieval-augmented generation (RAG), LLMs
  • Federated learning
• MLOps:
  • Workflow languages - Nextflow, Snakemake
  • Docker, Singularity
  • SLURM, Grid Engine, Kubernetes
  • AWS, DigitalOcean
• Databases: MySQL, SQLite, PostgreSQL
• Version Control & Software Management: Linux/Unix systems, git, svn, conda, GNU Guix
• Web Frameworks: Django, CSS, JavaScript, HTML, jQuery, PHP