I would like to convert these 3 lines (from a .vcf file):
##bcftools_annotateCommand=annotate -a /mnt/storage/home/gh13047/mr-eve/vcf-reference-datasets/dbsnp/dbsnp.v153.b37.vcf.gz -c ID -o /mnt/storage/private/mrcieu/research/scratch/IGD/data/dev/ukb-d-import/processed/ukb-d-20544_1/ukb-d-20544_1.vcf.gz -O z /mnt/storage/private/mrcieu/research/scratch/IGD/data/dev/ukb-d-import/processed/ukb-d-20544_1/ukb-d-20544_1_data.vcf.gz; Date=Mon Nov 25 15:37:00 2019
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT ukb-d-20544_1
1 692794 rs530212009 CA C . PASS AF=0.111693 ES:SE:LP:AF:SS:ID 0.000379398:0.000798869:0.197332:0.111693:117706:1_692794_CA_C
to a txt.gz file with R:
CHROM POS ID REF ALT QUAL FILTER INFO FORMAT ukb-d-20544_1
1 692794 rs530212009 CA C . PASS AF=0.111693 ES:SE:LP:AF:SS:ID 0.000379398:0.000798869:0.197332:0.111693:117706:1_692794_CA_C
I tried with MungeSumstats but it does not work.