Mark James Adams · @markjamesadams
142 followers · 213 posts · Server genomic.socialSomething that will always trip me up: the argument to `gatk SelectVariants --keep-ids` **has** to have the extension `.list`, otherwise the filename gets interpreted as an ID. #GATK #bioinformatics
Pierre Lindenbaum · @yokofakun
899 followers · 1008 posts · Server genomic.social#gatk 4.4.0.0 released: https://github.com/broadinstitute/gatk/releases/tag/4.4.0.0 moved to #Java 17
Pierre Lindenbaum · @yokofakun
740 followers · 607 posts · Server genomic.socialhttps://www.nature.com/articles/s41598-022-26181-3 "Comparison of calling pipelines for whole genome sequencing: an empirical study demonstrating the importance of mapping and alignment" #gatk #dragen #deepvariant #genomics #wgs
#GATK #dragen #DeepVariant #genomics #WGS
Pierre Lindenbaum · @yokofakun
582 followers · 350 posts · Server genomic.socialI got a new bug in #gatk : https://github.com/broadinstitute/gatk/issues/8106
Pierre Lindenbaum · @yokofakun
572 followers · 333 posts · Server genomic.social
Victor Chano · @vchano
40 followers · 21 posts · Server ecoevo.socialA question for the community working in #Epigenomics. Has any of you tried the #GATK MethylationTypeCaller to generate a #vcf file with epiallele information?
Clement Kent · @clementkent
49 followers · 96 posts · Server fediscience.org
Francois Sabot · @francois_sabot
189 followers · 147 posts · Server genomic.socialRT @GeoVacek
Now available in #GATK: NVScoreVariants, a new #deeplearning tool for filtering #genomic variants, developed by @NVIDIAHealth in collaboration with @broadinstitute, which delivers key improvements over CNNScoreVariants https://gatk.broadinstitute.org/hc/en-us/articles/10064202674971-Introducing-NVIDIA-s-NVScoreVariants-a-new-deep-learning-tool-for-filtering-variants- @gatk_dev