Red's Burritos and Taylor Farm salads were out of stock last time I was shopping, which is either because they'd pulled them because of this... orrrrrrr just my dumb luck. Check the list.

I have SO many issues with phyloseq as a base package but kinda love micro shades 2 level bar plots I did some reading but I may go back to numerical ecology.

Are they based on a certain 2014 paper that’s been refuted twice by chance? Also, if you don’t rarely, how do you handle the effect on depth in richness? How do you set your minimum sequencing depth for analysis or do you just combine samples w/ 100 seqs & 100K seqs?

That’s definitely where I like stacked bar plots. That was how we discovered they weren’t popping for fecal samples

1000% agree with “can’t just plot phyla”. Just not sold on krona plots

I have no idea if there's even a microbiome community in these skies but starting a little repo for microbiome/microbial ecology resources: github.com/nmshahir/how...#microbiome

GitHub - nmshahir/how-to-microbiome: Repository of microbiome / microbial ecology resources

Repository of microbiome / microbial ecology resources - GitHub - nmshahir/how-to-microbiome: Repository of microbiome / microbial ecology resources

Thank you!

Thank you!

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...

bioinformatics/GENERICdata.exploration.Rmd at master · krmaas/bioinformatics

random collection of scripts used to process sequences - krmaas/bioinformatics

Now my data and trash can look like a dizzying array of skittles!!!