Jessica Bonnie's Projects
UVA's SWC for Biomedical Researchers
Template for Software Carpentry bootcamp site repository.
This is a unified R client for BioThings APIs (http://biothings.io)
collocation analysis of genomics regions
Intro to Algorithms, Fall 2019
A Python package for extracting minimizers from sequence data
Tool to estimate deltas for sequence sets and answer questions about relative contribution
Delta-Delta Experiments
Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.
Elect-ron is a full featured online voting app with features such as poll creation, bulk users, eligibility check for voters.
A system for secure, trusted, and verifiable voting on the web
Code written at the Center for Public Health Genomics
Software Carpentry introduction to Git for novices.
Repository to reproduce analyses from the GTEx V6P Rare Variation Manuscript
Pipeline to perform basic SNP, gender, and population QC on genomic data.
experiment repo for bed sketching approach hammock
Practice
Create regional association plots from GWAS or meta-analysis
Linear Algebra and Differential Equations, Fall 2019
Acts as a lightweight machine learning exploration portal, currently focused on structured data alone. A user can test a variety of machine learning models on data, while also assessing various features and statistical measures of the data.
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MyVariant.info: A BioThings API for human variant annotations
Software Carpentry Bootcamp
Useful bash one-liners for bioinformatics.