From: Introducing W.A.T.E.R.S.: a Workflow for the Alignment, Taxonomy, and Ecology of Ribosomal Sequences
Results file | Contents | Purpose |
---|---|---|
aligned_sequences.fas | All seqs pre-OTUHunter | QC; Alignment |
bad_infernal_sequences.fas | Seqs un-alignable by Infernal | QC |
chimeras.fas | Seqs removed by Mallard | QC |
coordinates_Rank_abundance.csv | x,y coordinates for rank-abundance | Create graphs |
coordinates_Rarefaction.csv | x,y coordinated for rarefaction | Create graphs |
graph_*_variable.xgmml | Similarities between libraries based on shared OTUs | Cytoscape |
graph-Rank_Abundance.bip/.ps | Printed graph of rank-abundance curves | View graphs |
graph-Rarefaction.bip/.ps | Printed graph of rarefaction curves | View graphs |
otu-table.txt | Counts of OTUs and diversity indices at each cutoff and metadata variable | Graph OTUs; diversity metrics |
sequences-*.fas | One representative seq for each OTU found | Alignment |
short_sequences.fas | Short seqs that did not pass cut off | QC |
tree_*.txt | Phylogenetic tree of representatives with taxonomy information | Unifrac Dendroscope |
unifrac_*_variable.txt | "Environment file" for Unifrac; OTU abundance and library info | Unifrac |
workflow.trace | Provenance file written by Kepler describing the worklow run | QC |