Friends, do you have resources (papers, tutorials, blog posts, YouTube videos, word docs, handwritten notes on napkins, or transformative works like interpretive dance) about how to perform preliminary microbiome analyses you’d be willing to share? Like, what to look for in a stacked plot, 1/
how do you pick a rarefaction depth, first PCoAs, etc? I have some ideas but I’m trying to put together resources for friends. Also; will pay for interpretive dance in beverage of your choice
Here's what I do. I don't do stacked plots as initial look (i make krona plots for each sample). I think stacked bar plots are only useful when carefully chosen (can just plot phyla!). They are the abstract of your data, you make those when you are in the writing phase. github.com/krmaas/bioin...
random collection of scripts used to process sequences - krmaas/bioinformatics
I have a set of protocols that I use in teaching, I can email them to you if you like.
This could be your one stop shop. There is a lot of info in from @patschloss.bsky.socialwww.youtube.com/c/riffomonas...
I'm Pat Schloss! I produce videos about how to use data science tools to answer questions about the world around me. I believe that anyone can answer their own questions. Do you?! I'd love to learn mo...
Look up Pat Schloss on You Tube. He had a ton of videos explaining how to do everything, I think it was called Riffomonas? @patschloss.bsky.social am I remembering right?