These are some projects I have been working on.
Download Poster Used Star aligment and deseq2 to look at differential expression of Schistosoma mansoni in the intestions versus liver of rats. Link to code on GitHub: https://github.com/Brandy-Corwin/Schistosoma-RNA-seq
Used RAxML and Astral to create phylogenetic trees for South African protea.
Download Poster Used ipyrad and Treemix to detect introgression between sunflower populations in Wisconsin. Abstract: Introgression is the incorporation of genetic material from one species into another and can contribute to evolution. The goal of this research was to detect if introgression occurred in population of three sunflower species in Wisconsin, Helianthus giganteus, H. grosseserratus, and H. maximiliani. Previous studies have detected introgression in other sunflower species and there are both historical records of morphological intermediates and evidence for hybridization from crossing experiments for these species. I used the bioinformatics pipeline ipyrad on raw RADseq data from 357 samples to clean, align, and detect SNPs across the dataset. I then used TreeMix to create a maximum likelihood phylogenetic tree for the set of populations to look for evidence for introgression. I found no detectable introgression among the sunflower populations in this study. Instead, it appears that two samples of unknown populations are not of hybrid origin, and instead likely belong to Helianthus giganteus.
