8 results in 0.0021 seconds.
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Mapping and annotation using the T2T-CHM13 reference genome
Hi, I am planning to analyzing human WGS data with the T2T-CHM13 genome as reference, which is now regarded as the complete sequence of a human genom... -
VQSR mixture model and tranches plot doubts (GATK 4.1.7.0)
Hello everyone:
I am processing 74 germline exome sequencing samples of Mexican childhood patients on GATK 4.1.7.0. After VariantRecalibrator... -
Hetrozygous / Homozygous variant ratio humans
Hi everyone,
Does anyone have an idea what the het/hom variant ratio is for humans?
Is 0.7-1 reasonable depending on population... -
Data Analysis question
Hi all,
I'm going through some exome-seq data (10 samples), and following a "standard" pipeline - BWA, HaplotypeCaller, GenotypeGVCF,... -
Facing error while trying to build SNP recalibration model using GATK
Hello everyone,
Kindly help me in fixing following error while trying to build SNP recalibration model uing GATK,
$ java -jar... -
Is BQSR necessary for de novo mutation calling?
Hi there,
I have been using GATK to identify variants recently. I saw that BQSR is highly recommended. But I don’t whether it is still needed... -
Gatk vqsr
What does VQSR actually do? It improves the score? It filters the variants? or exactly what?
Is it an alternative for VariantFiltering based on... -
problem about GATK indel VQSR
java -Xmx4g -jar GenomeAnalysisTK-1.1-36-g367bbee/GenomeAnalysisTK.jar \
-T VariantRecalibrator \
-R ucsc.hg19.fasta \
-B:input,VCF...
