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Error while running SelectVariants
I try to utilize the SelectVariants tool for isolating 'hiConfDenovo' mutations after following GenotypeRefinement pipeline, but It prompts me an error message:
ERROR MESSAGE: Invalid JEXL expression detected for select-1 with message java.lang.String cannot be cast to java.lang.Boolean
My command line arguments were:
java -Xmx10g -jar /GATK-3.4/GenomeAnalysisTK.jar -T SelectVariants \
-nt 5 \
-R /Ref/human_g1k_v37.fasta \
-V /GATK/GENOTYPE-REFINE/UG/UG_denovo_postCGP_Gfiltered_CHG000691_2_3.vcf \
-o /GATK/GENOTYPE-REFINE/DENOVO/UG/UG_denovo_high_confidence.vcf \
-select 'GQ >= 20' \
Could you please help me where i am wrong and how i can select high-confidence denovo variants in separate VCF file?
Thanks in advance!