nrminor/dedup_and_recal

Python module for deduplicating assembly contigs (or any sequence) in a FASTA and recalibrating any available depths

Hi there 👋

I'm a biologist who develops research software with an emphasis on reproducibility, ease-of-use, and performance. Before my current position in David H. O'Connor's group at University of Wisconsin - Madison, I worked in bird population genomics and speciation at University of Wyoming and University of Minnesota—Twin Cities. I've also worked in collection and database management at the Field Museum of Natural History in Chicago and the Bell Museum of Natural History in Saint Paul, Minnesota.

My research interests include:

• population genomics
• speciation and population divergence
• evolutionary ecology
• immunogenomics
• disease ecology
• scientific reproducibility
• data visualization
• simulations (especially with SLiM!)

My entry to programming, like many biologists, was R, and I still regularly do stats and data visualization with R. Nowadays, I do most of my scientific computing in Python, and for special applications, I'm a huge fan of Rust. To design pipelines and containerize software, I also write a fair amount in Nextflow and Docker, and to create in silico evolutionary simulations, I use SLiM.

Collaboration is one the best parts of science. If you also develop research software or work on some of the same topics, I'd love to connect, bounce off ideas, and make the most of open-source software development together.