Genome Intelligence Blog

NGS QC

In this exercise we will focus primarily on quality analysis and quality control of Illumina sequencing data, since that is the type of NGS data you are currently most likely to encounter in new...

Got a Fresh Apple?

How do I get my computer ready for Bioinformatics 2111? I just got a new Apple laptop, so I get to do a fresh start. By the time I get through 4 years with...

Microbial community analysis with QIIME2

Microbial community analysis with QIIME2

This tutorial makes use of the data from the NC Urban Microbiome Project, a collaboration seeded by the Department of Bioinformatics and Genomics and involving participants from our department as well as Civil Engineering,...

Read mapping and variant calling

Mapping short sequence reads to a reference sequence is a common task in genomics. Many different results can be extracted from a mapped sequence, depending on the original experimental design that produced the sequence...

Pangenome analysis with PanX

PanX is a program for pangenome analysis and production of core genome phylogenies. The PanX analysis tools are available as a github package for custom genome analyses, and also as a web server. The...

Genome Comparison with Mauve

There are many ways to compare genomes, and these comparisons provide different kinds of information about evolutionary history and shared function. First, how do you decide which genes are “the same” across multiple genomes,...