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--- population-diversity:microbiome-analysis-with-qiime2-using-illumina-paired-end-sequence-data [2020/03/28 10:33] – created bngina
+++ population-diversity:microbiome-analysis-with-qiime2-using-illumina-paired-end-sequence-data [2020/03/28 11:27] – [Importing data into Qiime2] bngina
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+====== Analysis of Microbiome data ======
+Micriobial analysis aims to understand microbes and their functions in their environments. [[https://docs.qiime2.org/2020.2/tutorials/overview/| QIIME2]] (**Q**uantitative **I**nsights **I**nto **M**icrobial **E**cology) is a powerful, extensible, and decentralized microbiome analysis package with a focus on data and analysis transparency. QIIME 2 enables researchers to start an analysis with raw DNA sequence data and finish with publication-quality figures and statistical results.
-QIIME 2 is a powerful, extensible, and decentralized microbiome analysis package with a focus on data and analysis transparency. QIIME 2 enables researchers to start an analysis with raw DNA sequence data and finish with publication-quality figures and statistical results
+We outline a pipeline to analyse 16S/18S paired-end sequencing data. Qiime2 can be used to analyse single-end and paired-end data.
+==== Importing data into Qiime2 ====
+[[https://docs.qiime2.org/2020.2/concepts/|Data]] used and produced by qiime2 are stored as artifacts. Artifacts contain data and metadata and have a ''.qza'' extension. Qiime2 provides methods to view information (data and metadata) stored in artifacts by creating visualizations, that have a ''.qzv'' extension.
+We import raw fastq files into qiime2. Depending on the sequencing platform used to generate the data, you will have data that has been de-multiplexed into sample specif fastq files, or not. The Miseq plaform at BecA-ILRI Hub will demultiplex the data and we get sample specific fastq files.