Hello,
FastQC also reports the “per tile sequence quality” of reads. This seems to be missing in MultiQC reports. Is there an option available to get these data also included in the MultiQC report?
Thanks for your comments,
Best,
Hi @ARW-UBT,
This section is intentionally omitted from MultiQC - it’s because of the dimensionality of the data: the per-tile sequence quality plot is three-dimensional data (x,y,count) per sample. There is no easy way to represent this across many samples.
Normally in these cases I would try to simplify the data to make it possible to summarise, but in this case that probably means dropping one of the dimensions, and that gives the per-base sequence content, which we already have a plot for.
Hope that makes sense! Sorry it’s not good news, if you have any smart ideas about how to better solve this, let me know!
Phil
Hi @ewels ,
Thank you for your explanations. A summary of three-dimensional data over several samples /4th dimension) is of course “challenging”. The only idea that I have at the moment would be to collect the FastQC results score (green/orange/red) from the samples to include these in the multiqc results. This would indicate to the user, that one should have a look at the corresponding FastQC single results for more details.
But I am not sure whether these scores can be extracted from single FastQC data.
Thank you again for your greta multiqc tool and your support!
Best,
Alfons
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