editing lane number in number of fastq files
I want to edit lane numbers in fastq files as core ran into different lanes, base space will not recognize different lane numbers. What may be the best strategy.
Thanks .
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I assume you are referring to changing the numbers inside the file (and not just the file name)? That may not be advisable. There is a small chance that there will be a conflict between tile:X:Y coordinates for reads from two different lanes.
Why is base space not recognizing lane numbers (as long as they are in standard Illumina format).
You are right I want to change the FAstq file header s which are coming from different lanes. Base space is not recognizing cat different fastq files coming from different lanes so it was suggested by illumina to change the lane number to make them consistent otherwise basespace throws error that headers are not compatible.
You could do the following (select the fastq header from your file up to lane # (I am changing lane # from 2 to 8 in example below
You may get an error about duplicate ID's in case the changed ID exists.