Name: Trevor Freeman
Type: User
Company: University of Tennessee Institute of Agriculture
Bio: I'm a Research Assistant working in bioinformatics for the University of Tennessee Institute of Agriculture Genomics Center.
Location: Knoxville, TN, USA
Trevor Freeman's Projects
ATAC-seq peak-calling, QC and differential analysis pipeline
Code for Mastering Python for Bioinformatics (O'Reilly, 2021, ISBN 9781098100889)
Notes and solutions for Bioinformatics Algorithms 3rd ed. by Compeau and Pevzner.
Exercises for Candidates to join the BioMedical Team
Pick college football games against the spread!
Analyze historical rankings and ratings for college football teams.
A logical, reasonably standardized, but flexible project structure for doing and sharing data science work.
Cookiecutter template for a Python package.
A collection of Dockerfiles for my most useful base images
Fetch fastq files from SRA
The official Flask tutorial at https://flask.palletsprojects.com/en/2.2.x/tutorial/
A simple Flask blog application from a code along tutorial by Corey Schafer
Code examples from Head First Design Patterns.
A Nextflow pipeline for base NGS analysis.
A basic quarto book template.
a flexible pipeline for short read alignment to a reference
A template for a project using SRAlign or a pipeline built on SRAlign.
A central set of files for reproducible testing of SRAlign and pipelines built on SRAlign.
A pipeline for ATAC-seq preprocessing, alignment, peak calling, and read counting. Built on the SRAlign pipeline.
Code for Tiny Python Projects (Manning, 2020, ISBN 1617297518). Learning Python through test-driven development of games and puzzles.