Registration is now LIVE for BroadE Workshops: Best Practices for Variant Calling with the GATK.

BroadE Workshop: Best Practices for Variant Calling with the GATK
Tuesday, July 9 & Wednesday, July 10, 2013
9:00 AM - 12:00 PM

REGISTER HERE

This workshop will focus on the core steps involved in calling variants with the Broad’s Genome Analysis Toolkit, using the “Best Practices” developed by the GATK team. You will learn why each step is essential to the calling process, what are the key operations performed on the data at each step, and how to use the GATK tools to get the most accurate and reliable results out of your dataset.

The workshop will last two days, divided into lecture-style sessions in the morning and optional hands-on sessions in the afternoon (note that for practical reasons, attendance at the latter will be limited). In the morning, you’ll hear from the GATK development team and invited guests, who will explain the rationale, theory and real-life applications of the Best Practices. In the afternoon, the GATK team will help you work through interactive exercises and tutorials in which you will apply the Best Practices to real datasets.

Optional: Hands-on tutorial sessions & Breakout session on XHMM and GenomeSTRiP

Broad Institute
Auditorium
7 Cambridge Center
Cambridge, Massachusetts 02142

Registration closes June 21 at 5:00 PM.

Notification of acceptance or wait list status sent June 27.


Comment on this article in the forum



At a glance



Follow us on Twitter

GATK Dev Team

@gatk_dev

@geoffjentry @PatriciaMBrent Indel realn gone now; much faster BQSR + Sparkified tools in GATK4a. And wider scope of application/ use cases.
9 Dec 16
@geoffjentry @PatriciaMBrent B fair, other slide says results similar. Not uncommon for benchmark tests. But speed comparison v outdated 1/2
9 Dec 16
RT @geoffjentry: Talk by Stavros Papadopoulos about TileDB from @intel - used by @BroadGenomics to power our joint genotyping https://t.co/
8 Dec 16
@iskander @NJL_NGS Hm. Can you please post this in the forum?
8 Dec 16
@iskander @NJL_NGS Treat them like any other read, no special handling. Problems arise in CIGAR functions that don’t know how to handle Ns.
7 Dec 16

Our favorite tweets from others

Currently in a time-out for saying that duck fat had a certain "je ne sais quack" at the thanksgiving dinner table.
25 Nov 16
@dgmacarthur @BioMickWatson @StevenNHart @splon There's even a shop near Broad that apparently fixes Hail code erro… https://t.co/IZ4BcgRZYE
19 Nov 16
I'm very happy to be at GATK Workshop hands on with @gatk_dev ! There's always something to learn. Tip: there is free coffee. Lol
8 Nov 16
Have recently begun to think of slide editing as ‘downsampling my slides’. I suspect this indicates something is wrong with me.
1 Nov 16
See more of our favorite tweets...
Search blog by tag

appistry ashg ashg16 benchmarks best-practices bug bug-fixed cancer cloud cluster cnv collaboration 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 intel java8 job job-offer jobs license meetings mendelianviolations mutect mutect2 ngs outreach pairhmm parallelism patch performance phone-home picard pipeline plans ploidy polyploid poster presentations printreads profile promote release release-notes rnaseq runtime saas script search sequencing service slides snow speed status sting support syntax talks team terminology third-party-tools topstory troll tutorial unifiedgenotyper vcf-gz version-highlights versions vqsr wdl webinar workflow workshop