Yep, you read that right, the next release of GATK is going to be the big Three-Oh!

You may have noticed that the 2.8 release was really slim. We explained in the release notes, perhaps a tad defensively, that it was because we’d been working on some ambitious new features that just weren’t ready for prime time. And that was true. Now we’ve got a couple of shiny new toys to show for it that we think you’re really going to like.

But GATK 3.0 is not really about the new features (otherwise we’d just call it 2.9). It’s about a shift in the way we approach the problems that we want to solve -- and to some extent, a shift in the scope of problems we choose to tackle.

We’ll explain what this entails in much more detail in a series of blog posts over the next few days, but let me reassure you right now on one very important point: there is nothing in the upcoming release that will disrupt your existing workflows. What it will do is offer you new paths for discovery that we believe will empower research on a scale that has previously not been possible.

And lest you think this is all just vaporware, here’s a sample of what we have in hand right now: variant calling on RNA-Seq, and a multisample variant discovery workflow liberated from the shackles of time and scaling issues.

Stay tuned for details!


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@skanwal23 @geoffjentry @WDL_dev Google setting up public WDL service; we'll provide WDLs & test data buckets. Max reproducibility, soon!
30 Aug 16
@skanwal23 @wdl_dev Note: the WDL @geoffjentry linked to is the 1st of 2 parts of our WGS pipeline. Second part not yet shared (but soon)
30 Aug 16
RT @WDL_dev: @BroadGenomics Storage pls. How does volume of bio material compare to volume of servers needed to store the data? https://t.…
29 Aug 16
RT @BroadGenomics: After the Samples Lab, we move into Extractions or Storage. What would you like to see next? #BroadGenomicsTour https://…
29 Aug 16
@BrandonDWomack Sure, just ask in the GATK support forum https://t.co/6z2bZ2AeN0
29 Aug 16

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it's the nightly build owl for GATK :D https://t.co/OwTRrk6KHA https://t.co/rfmAbdIIQp
11 Aug 16
We're going to make an hg38 version of ExAC. And we'll make @dgmacarthur pay for it. #BioinformaticsCampaignPromises
2 Aug 16
You’re right @gatk_dev honesty is key! About variants manual filtering: “In any case you're probably in for a world of pain.” Ha now I know!
11 Jul 16
.@gatk_dev I like the new documentation index page, the subheading has made my day! :D #doge #GeekHumourFTW https://t.co/9RXnDTMoBm
8 Jul 16
There is no NGS, NG is today so should only be called high-throughput sequencing #CSC #GATKworkshop https://t.co/paHcNimD7o
16 Jun 16
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