Derek Caetano-Anolles
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Activity overview
Latest activity by Derek Caetano-Anolles-
Derek Caetano-Anolles commented,
Good question, Bhoom Suktitipat. Unfortunately, the date on that article is not accurate. Maybe someone else on the GATK team made an update? I've updated the article to list out the relevant dates...
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Derek Caetano-Anolles commented,
I'm sorry that you feel that way. The tone of the article was intended to make a technical topic more engaging and draw attention to a change that might otherwise be overlooked in the release notes...
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Derek Caetano-Anolles commented,
Sorry, I can't see another post. Your profile says you've only posted this one ¯\_(ツ)_/¯ Anyway, it's totally fine to question the decision to change the output format... it's also why we reverted ...
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Derek Caetano-Anolles commented,
Hi Eva (Evander) -- Good question. The variant calls were not made in the alt contig region, but were based on the Illumina masked reference available in the following DRAGEN-reference in the GCP ...
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Derek Caetano-Anolles created an article,
Masked reference genomes
The work presented here includes significant contributions from Pankaj Vats and Harry Clifford from NVIDIA. Factors that affect genomic analysis When it comes to sequencing experiments, ensuring ...
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Derek Caetano-Anolles commented,
Eddy W - By default the VCF files will not recognize those variant sites as missing genotype. This would require converting the GenotypeGVCFs output to a format that PLINK will recognize, by replac...
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Derek Caetano-Anolles commented,
Thank you for your input, SAMUEL ANDREW ~ As you know, you can still determine the missing genotypes because the FORMAT DP will be 0 even within the current GenotypeGVCFs format. So it is still pos...
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Derek Caetano-Anolles commented,
Felipe Batalini Good catch. The video link has been updated. Thanks for bringing it to my attention!
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Derek Caetano-Anolles created an article,
DRAGEN-GATK Webinar [December 3, 2021]
In this webinar, participants learned about the whats, hows, and whys of this partnership between the Broad and Illumina, with representative experts from each institution. This webinar was origin...
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Derek Caetano-Anolles created an article,
⚙️ GATK 4.3 release
The latest GATK release came out a few weeks ago, with changes corresponding to the period of April 13, 2022 - October 13, 2022. This update brings a ton of new tools to GATK, and we highly recomm...