Here is a Dropbox link to the presentations given at the Dec 4-5 GATK workshop:

https://www.dropbox.com/sh/0puyz82ecswm4ig/V2fW--1ZFS


Geraldine_VdAuwera


Here is the link to the XHMM presentation: http://db.tt/ljmY7MrG

Tue 4 Dec 2012

njolstad


Well presented and thanks for the slides - seems very useful for my future work.

Tue 4 Dec 2012

HarryPotter87


Thank you for the slides, Geraldine_VdAuwera. I'm reading them in order to learn GATK. What is the reference genome for the tutorial (.fa) and where can i download it? I tried with http://hgdownload.cse.ucsc.edu/goldenPath/hg19/chromosomes/ (chr 20), but it doesn't seem to work. Thank you very much again.

Tue 4 Dec 2012

Geraldine_VdAuwera


You can find the files in our the resources bundle on our FTP server; see instructions here: http://www.broadinstitute.org/gatk/guide/article?id=1213

Tue 4 Dec 2012




At a glance



Follow us on Twitter

GATK Dev Team

@gatk_dev

@BrianPardy Great, thanks for the feedback!
28 Sep 16
@BrianPardy Thank you! Does anything in particular stand out? We'd love to know what people find most useful so we can do more of the same.
28 Sep 16
#GATK workshop crew is in Basel, ready to roll! @ISBSIB https://t.co/m56JzpC1bN
25 Sep 16
@thatdnaguy That's right, we've retired it, see https://t.co/epbvwOQVTt
23 Sep 16
@geoffjentry @BroadGenomics Ah, you should ask @WDL_dev on the WDL forum then :)
21 Sep 16

Our favorite tweets from others

I've easily written my first custom ReadFilter for GATK. The @gatk_dev 's toolkit is a great example of programming.
21 Sep 16
@gatk_dev "make it so"
8 Sep 16
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
See more of our favorite tweets...
Search blog by tag

ad appistry ashg benchmarks best-practices bug bug-fixed cancer catvariants cloud cluster commandline commandlinegatk community compute conferences cram cromwell denovo depthofcoverage diagnosetargets error fix forum gatk3 gatk4 genotype genotype-refinement genotypegvcfs google grch38 gvcf haploid haplotypecaller hg38 holiday hts htsjdk ibm java8 job job-offer jobs license meetings mendelianviolations multithreading mutect mutect2 ngs nt outreach pairhmm parallelism patch performance phone-home picard pipeline plans ploidy polyploid poster presentations printreads profile promote reference-model release release-notes rnaseq runtime saas script search selectvariants sequencing service slides snow speed status sting support syntax talks team terminology third-party-tools topstory trivia troll tutorial unifiedgenotyper variantannotator variantrecalibrator vcf-gz version-highlights versions vqsr wdl webinar workflow workshop