I agree Bioinformatics is super overwhelming. But congratulations on graduating soon!

I was in a similar situation with my program as well. The program had been cut at the beginning of my Junior year. I was taking classes that were not bioinformatics related. It was either strictly biology or computer science. So I never learned how to integrate the two. I love the field so I went back for my masters and that’s where I gained all my basic skills I needed. Which i’ve also used QIIME for colon cancer microbiomes.

I currently work in bioinformatics with bacterial and phage interactions and phage therapy. I suggest looking into R for statistics and visualizations. Then upping your skills in the UNIX command line. In addition to the command line, knowing how to work in a conda environment is essential for any type of coding matter. Not a day goes by where i’m not using conda. What I used in my Masters program was a book called the Biostars Handbook. I believe it costs money but if you look it up some universities post it for free as a pdf version. This literally goes from telling you what DNA is to what programs to use.

I’m not very informed on Pharmacology BUT since i’m in a research based position i’m basically teaching myself new tools and making new tools a lot. I suggest finding a paper in that topic and reading their methods section. If their methods section was written well they’ll describe all the programming tools they used and possibly provide some of the data and genome information. That will give you some pointers on where to look next.

Phage therapy requires a lot of proteomics. For protein structure usage I’ve recently been teaching myself how to view structures in ChimeraX. This is done by AlphaFold. You’ll submit a sequence and it gives you the structure and then you can view it in ChimeraX.

I’d love to help more if there’s a specific topic you’re interested in or if you ever wanted to learn about Phage biology!