Thank you. I did an interesting test.
I sequenced same genomic DNA (18 in total) by different sequencing center, with different sequencing depth.
I would like to compare the two piece of data. So, I combine the 36 sequence data (18 with higher depth, 18 with shallow depth).
I used the DADA2, with the same parameter.
The alpha-rarefraction plot like that:
The taxa bar plot like that:
The paired-end-demux.qzv view like that:
Could you please help me with the questions?
- The alpha-rarefraction plot, the x-axis (0-2200) means? What’s the scale mean?
- The taxa bar plot lost the information of the shallow sequence data, however, when I only check the shallow sequenced data, the performance is not that bad. Do you have any suggestions?
The 18 samples with shallow sequencing depth, we get results, like that: