Feature: Compute & export data for bivariate plots

[vejnar]

Thanks for developing cramino. It's very fast! The bivariate plots generated by Nanoplot are very useful but the arrow/feather file computed by cramino doesn't have that info. Could it possible to compute, or add, if already available in cramino, the bivariate data to the arrow/feather file? Nanoplot could then be used for plotting only.

[wdecoster]

Which plots, specifically? The arrow file should contain the information to show the length vs accuracy plot. Was that not generated?

[vejnar]

Thanks for your reply. Using the options --arrow and plots kde, I am getting 8 plots, but in addition when running Nanoplot directly on the same BAM file, I got these plots:

• Percent identity x Average base quality
• Read length x Read mapping quality
• Read mapping quality x Average basecall quality
• Aligned read lengths x Sequenced read length
• Read lengths x Average read quality And at the top of the report, I also got stats of reads above quality cutoffs and different top 5.

Maybe I am missing something, but I am not sure what option of cramino or Nanoplot I could change. I am using the same options for Nanoplot, excluding the --bam vs --arrow options.

Thanks for your help.

[wdecoster]

Right, that is correct. Cramino does not collect all information as NanoPlot does. I have not found the missing plots particularly informative of the experiment performance, is there a specific insight that you do not get from the ones from the cramino arrow file?