Merge pull request #2 from tacaro/readme_init

updated readme

README.md

@@ -1 +1,25 @@
-# aeroDADA2
+# aeroDADA2
+This repository is a submodule. It contains asvs, sequences, and metadata for 16S amplicon data collected from C-20A science flights in the troposphere and lower stratosphere. The original sequences are publicly available on NASA GeneLab: https://genelab-data.ndc.nasa.gov/genelab/accession/GLDS-170/
+
+### Files
+- README.md: This file!
+- aeRo.R: R script implementation of DADA2 pipeline
+- aeRo.Rproj: corresponding R studio project
+- asv_table.csv: ASV table with tabulated ASV counts corresponding to each sampling sequence
+- sample_data.csv: Metadata for each sampling sequence.
+  - Sample.Name: Name of sample
+  - Material Type: Extracted DNA for all samples
+  - Sample.Description: Qualitative comments on sampling, flight path, negative control, etc.
+  - Organism: Metagenomic data for all samples
+  - Flight.Name: C20A flight location
+  - Sample.Category: Ground sampling or atmosphere sampling
+  - Collection.Date: Date of sampling
+  - Protocol.REF: Sample concentration for all
+  - is.neg: Whether the sample represents a negative control
+- seqtab_nochim.csv: tabulated sequences with chimeras removed
+- tax_table.csv: ASVs labeled with taxa annotated by silva132 database.
+- plots: subfolder containing plots generated from DADA2 pipeline.
+  - fnFsquality.tiff: Quality score values of forward reads
+  - fnRsquality.tiff: Quality score values of reverse reads
+  - errorF.tiff: error rates, observed and predicted, for forward reads
+  - errorR.tiff: error rates, observed and predicted, for reverse reads