population-diversity:microbiome-analysis-with-qiime2-using-illumina-paired-end-sequence-data
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population-diversity:microbiome-analysis-with-qiime2-using-illumina-paired-end-sequence-data [2020/04/29 14:53] – [Qiime2 data filtering and feature (OTU) table construction] bngina | population-diversity:microbiome-analysis-with-qiime2-using-illumina-paired-end-sequence-data [2020/04/29 15:01] – [Qiime2 data filtering and feature (OTU) table construction] bngina | ||
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=== Dada2 === | === Dada2 === | ||
- | The Dada2 pipeline detects and corrects illumina amplicon sequence data and additionally | + | The Dada2 pipeline detects and corrects illumina amplicon sequence data and additionally |
To see usage and parameters that can be adjusted get the help for the pluggin i.e | To see usage and parameters that can be adjusted get the help for the pluggin i.e | ||
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To determine what values to pass for these two parameters; | To determine what values to pass for these two parameters; | ||
*Review the Interactive Quality Plot tab in the //'' | *Review the Interactive Quality Plot tab in the //'' | ||
- | *The expected fragment size after the reads are joined, particularly for the //'' | + | *The expected fragment size after the reads are joined, particularly for the //'' |
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+ | The command would therefore be | ||
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+ | < | ||
+ | qiime dada2 denoise-paired \ | ||
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+ | </ |
population-diversity/microbiome-analysis-with-qiime2-using-illumina-paired-end-sequence-data.txt · Last modified: 2020/04/29 15:09 by bngina