madelinehakala,Madeline Hakala,github

Hello! I'm Madeline Hakala, a bioinformatics graduate student. I have 2+ years of bioinformatics research experience in academia as well as 1.5+ years in the corporate biotechnology/medical devices world. I'm using this space to document my original research and personal projects.

Madeline Hakala's Projects

de-analysis-python-wrapper

This repository houses a python wrapper script (and associated files) that automates the Kallisto/Sleuth pipeline for DE analysis.

debiasing-diabetes-predictor

ML algorithms in the health care field are often biased due to racial/economic/etc disparities in subject populations. This project explores debiasing methods.

madelinehakala

Config files for my GitHub profile.

mouse-heart-scrna-seq-analysis

This project involved building a generalizable pipeline for scRNA-Seq analysis, which our team used to assess muscle contractile gene heterogeneity in the mouse heart.

phenotype-prediction-tool-benchmarking

Benchmarking various phenotype prediction tools and machine learning models to determine the best overall tool for phenotype prediction.

ribbon-overexpression-analysis

Identifying transcriptional targets of the ribbon gene in Drosophila (thesis project).

skin-occlusion-effect-on-microbiome

IN PROGRESS: Reanalyzing occlusion vs non-occlusion metagenomic sequencing data using updated approaches to determine whether there is a difference in microbial profiles.