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jeffhussmann / knock-knock

toolkit for analyzing genome editing experiments
GNU General Public License v3.0
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max_relevant_length? #8

Closed hukai916 closed 1 year ago

hukai916 commented 1 year ago

Hi Jeff,

Seems that the max_relevant_length column in pacbio sample sheet is not defined. Does it refer to the maximum read length of my fastq file? Can I set an arbitrarily large number for my samples since I have many to run or I must set the exact max read length for each sample?

Thanks,

--Kai

jeffhussmann commented 1 year ago

Hi Kai -

max_relevant_length is only used to set the x-axis limits in amplicon length distribution plots. If you don't use these plots, it does not need to be set at all. If you do, set it to a value that you expect to contain the majority of the length range you are interested in.