(high-temp) No 3. Filtering: (16S rRNA/ITS) Output

<b>Output files from the No 3. Filtering Workflow</b> page of the SWELTR high-temp study. ASV filtering for 16S rRNA &amp; ITS using <b>a</b>) Arbitrary filtering, <b>b</b>) PERFect (PERmutation Filtering test for microbiome data), and <b>c</b>) PIME (Prevalence Interval for Microbiome Evaluation) Workflow objects:<br><b>filtering_wf.rdata:</b> contains all variables and phyloseq objects from 16s rRNA and ITS ASV filtering. To see the <b>Objects</b>, in R run <i>load("</i><i>filtering_wf.rdata", verbose=TRUE)</i><br>Additional files:<br>For convenience, we also include individual phyloseq objects for each filtered data set.<br><b>Arbitrary: <br></b><b><b>ssu18_ps_filt.rds: </b></b>phyloseq object for Arbitrary filtered 16S rRNA ASVs.<b><b><br>its18_ps_filt.rds: </b></b>phyloseq object for Arbitrary filtered ITS ASVs.<b><b><br><br></b></b><b>PERfect:</b><br><b><b><b>ssu18_ps_perfect.rds</b>: </b></b>phyloseq object for PERfect filtered 16S rRNA ASVs.<b><b><br><b>its18_ps_perfect.rds</b>: </b></b>phyloseq object for PERfect filtered ITS ASVs.<b><b><br></b></b><br><b><b>PIME: </b> </b><br><b>ssu18_ps_pime.rds</b>: phyloseq object for PIME filtered 16S rRNA ASVs.<br><b>its18_ps_pime.rds</b>: phyloseq object for PIME filtered ITS ASVs.<br><b>Source code</b> for the workflow can be found here:https://github.com/sweltr/high-temp/blob/master/filtering.Rmd <br>