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Updated Practical 3 Processing 16S rRNA amplicon data (markdown) authored by Ben Francis's avatar Ben Francis
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Practical-3-Processing-16S-rRNA-amplicon-data.md
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Before we begin, there's one thing we need to download, which is the formatted silva database used by DADA2 to assign taxonomy. Before we begin, there's one thing we need to download, which is the formatted silva database used by DADA2 to assign taxonomy.
$ cd /bioinf/home/your_username/day_1/demultiplexed $ cd /bioinf/home/your_username/marmic_NGS2020/day_1/demultiplexed
$ wget https://zenodo.org/record/1172783/files/silva_nr_v132_train_set.fa.gz $ wget https://zenodo.org/record/1172783/files/silva_nr_v132_train_set.fa.gz
### 3.1 Processing our data with DADA2 ### 3.1 Processing our data with DADA2
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