Courses & Skills

BIOL-GA 1007 · Completed

Python and Linux for biological data analysis, including file processing, reusable functions, and debugging. Sequence analysis with Biopython and BLAST; data handling and visualization with NumPy, pandas, and SciPy.

BIOL-GA 2030 · Completed

Statistical analysis in R, from experimental design and hypothesis testing to regression and ANOVA. Bootstrap and permutation methods, with attention to model assumptions, uncertainty, and interpretation of biological data.

BIOL-GA 1132 · Completed

Genomic approaches to population history, migration, and natural selection. Analysis of linkage disequilibrium, population structure, and admixture in R, connecting patterns of genetic variation with evolutionary processes.

BIOL-GA 1009 · Completed

Relational database design and SQL queries with MySQL and SQLite. Biological data mining through clustering, classification, and regression, including applications to gene-function prediction and integration of genomic information.

BIOL-GA 1129 · Completed

Critical reading of research on speciation, genome evolution, phylogenomics, and genotype–phenotype relationships. Evaluation of figures and analytical evidence, alongside literature synthesis and scientific writing.

BIOL-GA 1130 · Completed

Sequencing workflows on Linux and HPC, including SLURM, quality control, alignment, and quantification. An individual pine RNA-seq project on NLR expression, using Salmon/tximport, DESeq2, Mfuzz, and WGCNA, with R Markdown documentation and a Shiny dashboard.

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BI-GY 7693 · In progress

Comparative and population-genomic approaches to evolutionary questions: phylogenetic reconstruction, orthology, synteny, population structure, and adaptation. Interpretation of genomic variation in studies of traits and disease.

BIOL-GA 1133 · In progress

Predictive modeling for biological and medical data, including regression, classification, decision trees, random forests, support vector machines, and neural networks. Model selection, cross-validation, and assessment of generalization and limitations.