List VCF¶
Command examples:¶
atav.sh --list-vcf --sample PATH_TO_SAMPLE_FILE --out PATH_TO_OUTPUT_DIR
Command options:¶
--list-vcf: trigger list vcf function.
All the Command Options are available to use in this function.
Output:¶
variants.vcf
##fileformat=VCFv4.2 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data"> ##INFO=<ID=AF,Number=1,Type=Float,Description="Allele Frequency"> ##INFO=<ID=ANN,Number=.,Type=String,Description="Consequence annotations: Effect|Gene|Transcript|HGVS_c|HGVS_p|Polyphen_Humdiv|Polyphen_Humvar"> ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT
Please check Output Columns for common columns.