A Report with allele Heterozygosity and results of a Hardy-Weinberg test
sorted by SNP can be generated here. The Report is sent to the User
The columns in the Report stand for:
Code of SNP
Number of Genotypes (results) for this SNP.
Observed Heterozygosity. (Heterozygous genotypes / total genotypes)
Expected Heterozygosity calculated from the allele frequency.
Calculated from a table of two cells (Heterozygous / Homozygous).
This has been calculated this way to keep working when more than two
alleles are present in a SNP.
There may be differences with results obtained from other softwares
which use a table with 3 cells (AA / AB / BB).
P-value obtained from the Chi-square above using 1 degree of
Not valid (N) when there is some expected value in the chi-squared
contingency table that is equal or below 1.
- Batch mode.
This is a fundamental time-saving feature. Selecting one of the fields in
the Samples or SNP table, SNPator will run this analysis as many
times as different values are in that fields, using each time only those samples or SNPs that have each of the values. For instance, if you
have defined your samples in the "sex" field as "M" or "W", selecting
"sex" as the attribute of the Sample batch mode will result in having
two runs of the analysis, taking separately men and women.
If you select at the same time sample and SNP batch fields, you are
going to obtain as many runs of the analysis as all possible
combinations of the values of samples and SNPs in the fields you
- Haploid data treatment:
Currently, only diploid genotypes are supported. Those SNPs containing haploid genotypes will be excluded from the calculation
and a warning indication will appear in the results file.