No 2. DADA2 Workflow Jarrod Scott 10.25573/data.12403865.v1 https://smithsonian.figshare.com/articles/dataset/No_2_DADA2_Workflow/12403865 Output files from the No 2. DADA2 Workflow page of the Bocas Hypoxia study. <div><br></div><div>File names and descriptions:</div><div><br></div><div><b>RUN01_read_changes.txt</b>: Tracking changes in read counts (per sample) from the beginning to end of the DADA2 workflow.<br></div><div><b>RUN02_read_changes.txt</b>: Tracking changes in read counts (per sample) from the beginning to end of the DADA2 workflow.<br></div><div><b>combo_pipeline.rdata: </b>contains sequence and taxonomy tables from the DADA2 pipeline needed for subsequent analyses. To see the <b>Objects</b>, in R run <i>load("combo_pipeline.rdata", verbose=TRUE)<br></i></div><div><br></div><div>1) seqtab.1: Sequence table from Run01 before merging with Run02.</div><div><div>2) seqtab.1: Sequence table from Run02 before merging with Run01.</div><div>3) st.sum: merged sequence table before removing chimeras</div><div>4) st.all: duplicate of st.sum</div><div>5) seqtab: merged sequence table after removing chimeras</div><div>6) tax_silva: Silva (v132) taxonomy table of seqtab</div><div><div>7) tax_gg: GreenGenes taxonomy table of seqtab</div><div><br></div></div></div> 2020-06-01 13:28:34 16S rRNA sequencing analysis 16S rRNA gene amplicon sequencing coral reefs Bocas del Toro hypoxia hypoxic marine microbial ecology Microbial Ecology