Tutorial output for Tourmaline amplicon sequence processing workflow

Tutorial output for the Tourmaline amplicon sequence processing workflow. Tourmaline was run on the test data provided in the directory 00-data, which were downloaded along with the rest of the repository using this command: <pre><code>git clone https://github.com/aomlomics/tourmaline</code></pre> Reference data were downloaded and symlinked using these commands: <pre><code>cd tourmaline/01-imported wget https://data.qiime2.org/2021.2/common/silva-138-99-seqs-515-806.qza wget https://data.qiime2.org/2021.2/common/silva-138-99-tax-515-806.qza ln -s silva-138-99-seqs-515-806.qza refseqs.qza ln -s silva-138-99-tax-515-806.qza reftax.qza</code></pre> Paths in 00-data/manifest_pe.csv and 00-data/manifest_se.csv were edited to match the local paths. Output for all modes of the workflow were then generated in series: <pre><code>conda activate qiime2-2021.2 snakemake dada2_pe_report_unfiltered snakemake dada2_pe_report_filtered snakemake dada2_se_report_unfiltered snakemake dada2_se_report_filtered snakemake deblur_se_report_unfiltered snakemake deblur_se_report_filtered</code></pre>