For example, if the size of the alleles given by the software are 358.53 and 362.22. Should the genotype be (359, 362), or (359, 363), or something else? Is there a rule or something?
The 'al' number beneath the 'sz' statistic seems a good guess (although I have absolutely no experience with this type of output), in this case 359/363, 306/306 and 260/269. Note that it isn't always rounded to the nearest whole number.
thank you very much. But the 'al' number is also identified by the software. I guess one nucleotide error can not be overcome unless the pedigree of the samples is clear. "Note that it isn't always rounded to the nearest whole number". I agree with you on this point.
It looks to me like the sz # is determined from the height of the peak and then the al # is extrapolated from that. However, when you look at the peaks you notice that the shoulder of some peaks is to the left and others is to the right. You might want to adjust the actual size of the peak up or down based on where the shoulder of the peak lies.
Another thing to consider is the size of the microsatellite that is repeated. If it is a 2bp repeat, then you could adjust your sizes to reflect sizes that increase by 2 bp.
Thank you very much, Dr. Weiler. I think your experience is very helpful to me.
- Badges
- Science topic
- Similar topics
- Correction