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--- population-diversity:microbiome-analysis-with-qiime2-using-illumina-paired-end-sequence-data [2020/03/30 13:44] – bngina
+++ population-diversity:microbiome-analysis-with-qiime2-using-illumina-paired-end-sequence-data [2020/03/30 13:52] – [Importing data into Qiime2] bngina
@@ Line 13: / Line 13: @@
 Read more about [[ https://docs.qiime2.org/2020.2/tutorials/importing/|different data types and importing them into qiime2]] for anlaysis. We will be importing data described as type //Cassava 1.8 paired-end de-multiplexed fastq//.
-Import data as follows:
+To import fastq files;
+<code>
+#i create a directory to store all my artefact i.e '.qza' and the related visualizations i.e '.qzv' files..
+mkdir /home/mydir/qiime2_data/
+#import the fastq files
-''
 qiime tools import \
  --type 'SampleData[PairedEndSequencesWithQuality]' \
- --input-path /home/bngina/Fellows/Yves_Tchiechoua/orig_data \
+ --input-path /home/mydir/qiime2_data/ \
  --input-format CasavaOneEightSingleLanePerSampleDirFmt \
- --output-path /home/bngina/Fellows/Yves_Tchiechoua/qiime2_data/yves_data1.qza
+ --output-path /home/mydir/qiime2_data/my_raw_data.qza
-''
+</code>