Updates to Genotype quality control (DNA/Tumor/WGS)

[Nicklas Nordborg]

We need to make some changes to the Genotype quality control (DNA/Tumor/WGS) wizard. This wizard was designed to compare the tumor genotypes against the normal genotypes (from the blood sample). But we are getting sequence data in a non-optimal order for this and we now have lot more tumor data than normal data. The problem is that the wizard will take all existing data and compare with what we have at the moment which means that only about half of the tumor data can be compared against the normal data. The wizard currently doesn't care about this but will mark all tunor data as "Checked" and then we will never get a chance to compare it against the normal data when we get that.

So the following changes are needed:

• In the first step, only tumors that have a matching normal aligned item should be selected.
• In the second step, there should be an option to not register as "Checked" and this should be the default for those items that has not been compared against a normal sample.

[Nicklas Nordborg]

In 7752:

References #1598: Updates to Genotype quality control (DNA/Tumor/WGS)

The list now include information if there is a matched normal for the same patient. Only those that have it are selected by default.

[Nicklas Nordborg]

In 7753:

Fixes #1598: Updates to Genotype quality control (DNA/Tumor/WGS)

Added a "Checked" checkbox to the second step. Either this or the "Disable" checkbox must be checked for the results to be registered. If there are no comparisons to another sample for the same patient the default is to leave both unchecked.