Monthly Archive: January 2020

Genome annotation with prokka

Why use Prokka? First, because in a benchmark test it has been shown to be as or more accurate at reproducing known annotation than RAST or xBASE2 in most annotation categories. Second, because it’s...

Sequence Assembly

For today’s class, I have prepared a shared dropbox folder that contains the following items: sequence reads from one of the better chloroplast genome samples generated with our Ion Torrent instrument ERR008613 (a set...

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...