Louise Cerdeira lcerdeira

About Me

class LouiseCerdeira:
    role        = ["Senior Software Engineer", "Computational Biologist",
                   "Data Scientist", "Professor", "Consultant"]
    certified   = ["PMP — Project Management Professional"]
    focus       = ["Antimicrobial Resistance", "Genomic Epidemiology", "Global Health"]
    languages   = ["Python", "R", "Go", "Rust", "C++", "TypeScript", "JavaScript", "Bash", "SQL"]
    frontend    = ["React", "Next.js", "D3.js", "R Shiny", "Tailwind CSS"]
    backend     = ["FastAPI", "Django", "Node.js", "Express", "GraphQL", "REST"]
    data        = ["NumPy", "Pandas", "Polars", "DuckDB", "scikit-learn", "PyTorch"]
    bio_tools   = ["Snakemake", "Nextflow", "Bioconda", "GATK", "BWA", "Samtools"]
    cloud       = ["AWS", "GCP", "Docker", "Kubernetes", "Terraform"]
    consulting  = ["Strategic Planning", "Stakeholder Management", "Agile", "Scrum"]
    philosophy  = "For pleasure without pressure ✨"

I build bioinformatics tools and data platforms at the intersection of genomics, epidemiology, and software engineering — with a focus on antimicrobial resistance surveillance and pathogen genomics for global health impact. As a professor and consultant, I bridge cutting-edge research with production-grade engineering and strategic decision-making.

Tech Stack

Languages

Frontend

Backend & APIs

Data Science & ML

AI & Deep Learning — State of the Art

Hype Stack

Bioinformatics & Workflow Engines

Databases

Infrastructure & Cloud

Project Management & Academia

AI & Machine Learning

Deep Learning Architectures Transformers — BERT, GPT, ViT, T5, LLaMA, Mistral Autoencoders & VAEs for genomic latent spaces Graph Neural Networks (GNNs) for protein interaction Diffusion models for biological sequence generation CNN, LSTM, GRU — sequence & signal modelling Mixture of Experts (MoE) architectures	Biological AI Applications Sequence classification & AMR phenotype prediction Multi-omics data integration & dimensionality reduction Genomic foundation models — Nucleotide Transformer, ESM2 AlphaFold2 / protein structure prediction pipelines Anomaly detection in epidemiological time-series LLM pipelines for clinical text & genomic report generation
MLOps & Experiment Tracking MLflow · Weights & Biases · DVC Model versioning, registry & A/B evaluation Distributed training — Ray · PyTorch Lightning · DeepSpeed Model serving — ONNX · TorchServe · FastAPI · Triton Vector databases — Pinecone · ChromaDB · Weaviate	Statistical & Classical ML Bayesian inference — Stan, PyMC Gradient boosting — XGBoost · LightGBM · CatBoost Survival analysis & mixed-effects models Dimensionality reduction — PCA · UMAP · t-SNE · PHATE Causal inference & counterfactual modelling

Featured Projects

🌐 AMRNet

Global antimicrobial resistance surveillance platform — interactive genomic epidemiology dashboard tracking resistance trends across pathogens worldwide.

🔬 AMR Rule Browser

Interactive browser for AMR interpretation rules — enables researchers to explore, filter and validate antimicrobial resistance genotype-phenotype rules.

🦠 TyphiNET

Global genomic surveillance platform for Salmonella Typhi — tracks drug resistance and genotype distribution across endemic countries in real time.

🧫 MINUUR

Metagenomic pipeline for investigating non-human reads — extracts and characterises microbial content from whole-genome sequencing data using Snakemake.

📊 Kleborate-Viz

Visualisation tool for Kleborate output — interactive dashboards for exploring Klebsiella genomic surveillance data including AMR and virulence profiles.

🕷️ Spyder

Bioinformatics tool for rapid identification and characterisation of genomic sequences — built for scalable analysis of large pathogen datasets.

GitHub Stats

Research & Engineering Focus

🦠  Antimicrobial Resistance (AMR)     ████████████████████  Global surveillance tools
🧫  Pathogen Genomics                  ██████████████████░░  Klebsiella, Salmonella, E. coli
📊  Genomic Epidemiology               █████████████████░░░  Population-scale analyses
🔧  Bioinformatics Pipelines           ████████████████████  End-to-end workflow engineering
🤖  Machine Learning / AI              ████████████████████  Foundation models · MLOps
🌐  Full-Stack Engineering             ████████████████████  React · Node · FastAPI · Go
📈  Data Science & Visualisation       ████████████████░░░░  Interactive genomic dashboards
🎓  Teaching & Consulting              ███████████████░░░░░  PMP · Agile · Strategic Advisory

🤝 Let's Connect

For pleasure without pressure ✨ — because the best code comes from genuine curiosity.

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