Callset Refinement

vsvinti

Hi there

The current best practices document on callset refinement mentions plans to improve docs on this topic in September 2015. Do you have any updates on timeline?

Thanks!

Sheila

@vsvinti
Hi,

Yes, that document on VariantEval was the first of more to come. I expect to add more documentation by the end of November. I don't have an exact date for when the Best Practices will be refined, but it should be by early next year.

-Sheila

Sheila

@vsvinti
Hi,

I suspect you are asking about our new document on VariantEval. It is here: http://gatkforums.broadinstitute.org/discussion/6308/evaluating-the-quality-of-a-variant-callset

-Sheila

vsvinti

A, I have already seen this. Is that the document that the following is referring to (from best practices)?
"Please note that we are currently reevaluating our recommendations for parts of this analysis phase in order to provide better guidance. We expect to publish improved documentation on this topic in September 2015."
https://www.broadinstitute.org/gatk/guide/bp_step.php?p=3

I thought that it was referring to the best practices section being updated ..

Geraldine_VdAuwera

Yep, once we have the full set posted we'll add them to the Best Practices and edit the Best Practices description accordingly.

vsvinti

Ok, I was wondering about the timeline ..

Sheila

@vsvinti
Hi,

Yes, that document on VariantEval was the first of more to come. I expect to add more documentation by the end of November. I don't have an exact date for when the Best Practices will be refined, but it should be by early next year.

-Sheila