This contains all of the commands, but a few things need to be addressed before merge:
[x] DADA2 is filtering most sequences, not sure why yet (update: after additional review of the quality score plots, I noticed that reads vary slightly in length - my previous parameter setting was based on positions that were informed by fewer reads. this is addressed in the tutorial content now and commands are good to go, but we should figure out what's going on so we can answer questions about it)
[x] add some basic text
~sequence data is currently downloaded from Dropbox, need to get that to AWS~ now separate issue (#35)
This PR also adds numbers to the subdirectories under book so they execute in the intended order (the downstream chapters were previously executing before the upstream chapters).
This contains all of the commands, but a few things need to be addressed before merge:
This PR also adds numbers to the subdirectories under
bookso they execute in the intended order (the downstream chapters were previously executing before the upstream chapters).