Once your genotype data is free from contradictions it is ready to be
transferred into the Genotypes table where complex Analysis and Data
Retrieval procedures may take place. (See the Study help page for more
details about SNPator structure).
Data Transfer will not take place if any incoherence is found.
If the data are ready to be transferred, SNPator will, first of all, erase all the
results currently stored in the Genotypes table and, then, will copy there all
the non-cancelled results in the Raw Genotypes table (belonging to all plates
present in the study even if they have been already transferred before). Only
one result for genotype will be transferred. This is no problem, since at this
point all the genotypes for a given SNP and Sample have to be identical
thanks to the Quality Control process.
In order to keep data free from contradictions, SNPator will not transfer any
result associated to a SNP or Sample not previously defined. You have,
however, the possibility of selecting an option to force it to define them on the
By ticking this box, new SNPs and Samples corresponding to the Genotypes being transferred will be automatically created in the SNP and Sample tables
in case they did not exist.
Note that this option is a VERY easy way to create Samples and SNPs. Much easier indeed than uploading them. However, it has to be taken with
In case of a misspelling of a Sample or SNP, a new, misspelled, entry
will be created. There will be no warning, and therefore you will not be
able to solve the problem.
Automatic creation only fills up the "code" field. This is good enough if
you only want to download your quality-controlled data from SNPator and plan to perform analysis elsewhere. However, to perform analysis
in SNPator, additional information on Samples and SNPs is required
and will have to be entered in the system later on.
You can choose to allow for multiallelic SNPs in SNPpator.
By ticking this box you are allowing that data from SNPs with more than two
alleles is transferred into the Genotypes table.
If this box is not ticked and multiallelic SNPs are detected, the Data Transfer
process will be aborted and the corresponding note will be inserted in the User Results section.
You have to be extra careful. Multiallelic SNPs can be stored and managed,
but having multiallelic SNPs in your Study may cause that some of the
analysis performed SNPator provide erroneous results.
- If there are warnings in the coherence control (as for example when we get
a "AA" and an "A" for the same result), the data transfer will usually not be
By clicking this box, however, these warnings will not be taken into account
and the data transfer will be forced.
- Finally, by selecting the Keep validity option
If we transfer a Genotype to the Genotypes table of SNPator that was
already there, its validity status will be conserved and we will not have to
perform the validation process again for it. This option is selected by default.