A graphical representation of the performance of 6 example SNPs for 948 individuals. Screen shots of the call zones (ellipses) and respective calls (solid shapes) for select SNPs from 948 individual genotypes. Blue represents call zone and calls of "B/B", Green represents "A/B", and Purple represents "A/A". Red represents those individuals that produced a "No Call" for the SNP. RAS1 and RAS2 scores are indicated on the x and y-axis respectively. Panel (a) SNP_A-1517236 and (b) SNP_A-1510986 represent SNPs with tightly clustered RAS scores, but inadequately trained call zones. An infrequently called SNP (SNP_A-1606312) with no systematic explanation is illustrated in panel c. Some SNPs cluster tightly at their RAS2 values, but have widespread RAS1 values (SNP_A-1513739) as in panel d. The opposite effect is seen in panel e (SNP_A-1508518). Panel f shows a SNP that is called >99% of the time (SNP_A-1511517) in these 948 individuals.
Huentelman et al. BMC Genomics 2005 6:149 doi:10.1186/1471-2164-6-149