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
  • unit testing - R (testthat), Python (unittest, pytest)
  • bash
• Machine Learning:
  • Statistical tests: incl. t-tests, Wilcoxon, ANOVA
  • Regression: incl. linear regression, logistic regression, survival models (Cox proportional hazards, Kaplan-Meier estimation), ridge, LASSO, and elastic net regularization
  • Classification: incl. ensemble (random forests, XGBoost), kernel (SVM), and linear/probabilistic (LDA, logistic regression), distance-based (k-nearest neighbors) models
  • 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: MCMC, replica exchange Monte Carlo, simulated annealing
  • Deep learning: variational autoencoders (VAEs), CNNs, transfer learning, transformers, retrieval-augmented generation (RAG), NLP, LLM toolchains (LangChain, Mistral, Llama, Groq, Ollama, Chainlit, Qdrant, FastEmbed, SPARQL)
  • Federated learning
• MLOps:
  • Workflow languages - Nextflow, Snakemake
  • Docker, Singularity
  • SLURM, Grid Engine, Kubernetes
  • AWS (S3, EC2, AWS Batch, Sagemaker), 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