Figure out the metadata!

[avancise]

We need to figure out a relatively painless way to get the metadata into the Miseq sequence file so that it can be pulled into phyloseq. This will also involve figuring out what we want our columns to be ahead of time and making all Miseq sequence files consistent downstream.

[alexandriai168]

added a script called merge_metadata.R (the code is now also in the .qmd file) that has 2 inputs:
-SampleSheetUsed.csv (the miseq sample sheet)
-Hake_2019_metadata.csv (sample metadata sheet)
it essentially sees what samples are present in the run (does some merging of names/data wrangling with the naming), and then merges in the sample metadata from Hake_2019_metadata.csv

let me know if that fixes this problem!