Unfortunately, not all reference genomes will have the quality of P. falciparum. Apart from some model species (for example, humans, or the common fruit fly Drosophila melanogaster) and a few others, most reference genomes could use some improvement. In this recipe, we will look at how to deal with reference genomes of lower quality.
Dealing with low-quality genome references
Getting ready
In keeping with the malaria theme, we will use the reference genomes of two mosquitoes that are vectors of malaria: Anopheles gambiae (which is the most important vector of malaria and can be found in sub-Saharan Africa) and Anopheles atroparvus, a malaria vector in Europe (while the disease has been eradicated in Europe, this vector is...
