Mercurial > repos > devteam > samtools_mpileup
comparison test-data/samtools_mpileup_out_2.vcf @ 4:c6fdfe3331d6 draft
Uploaded
| author | devteam |
|---|---|
| date | Tue, 21 Apr 2015 16:29:10 -0400 |
| parents | |
| children | 583abf29fc8e |
comparison
equal
deleted
inserted
replaced
| 3:973fea5b4bdf | 4:c6fdfe3331d6 |
|---|---|
| 1 ##fileformat=VCFv4.2 | |
| 2 ##FILTER=<ID=PASS,Description="All filters passed"> | |
| 3 ##samtoolsVersion=1.1+htslib-1.1 | |
| 4 ##samtoolsCommand=samtools mpileup --VCF --uncompressed -f /tmp/tmpId8vOP/tmp3bubIE/database/files/000/dataset_735.dat -g -e 20 -h 100 -L 250 -m 1 --open-prob 40 -F 0.002 -e 40 --output /tmp/tmpId8vOP/tmp3bubIE/database/files/000/dataset_736.dat /tmp/tmpId8vOP/tmp3bubIE/database/files/000/dataset_734.dat | |
| 5 ##reference=file:///tmp/tmpId8vOP/tmp3bubIE/database/files/000/dataset_735.dat | |
| 6 ##contig=<ID=phiX174,length=5386> | |
| 7 ##ALT=<ID=X,Description="Represents allele(s) other than observed."> | |
| 8 ##INFO=<ID=INDEL,Number=0,Type=Flag,Description="Indicates that the variant is an INDEL."> | |
| 9 ##INFO=<ID=IDV,Number=1,Type=Integer,Description="Maximum number of reads supporting an indel"> | |
| 10 ##INFO=<ID=IMF,Number=1,Type=Float,Description="Maximum fraction of reads supporting an indel"> | |
| 11 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Raw read depth"> | |
| 12 ##INFO=<ID=VDB,Number=1,Type=Float,Description="Variant Distance Bias for filtering splice-site artefacts in RNA-seq data (bigger is better)",Version="3"> | |
| 13 ##INFO=<ID=RPB,Number=1,Type=Float,Description="Mann-Whitney U test of Read Position Bias (bigger is better)"> | |
| 14 ##INFO=<ID=MQB,Number=1,Type=Float,Description="Mann-Whitney U test of Mapping Quality Bias (bigger is better)"> | |
| 15 ##INFO=<ID=BQB,Number=1,Type=Float,Description="Mann-Whitney U test of Base Quality Bias (bigger is better)"> | |
| 16 ##INFO=<ID=MQSB,Number=1,Type=Float,Description="Mann-Whitney U test of Mapping Quality vs Strand Bias (bigger is better)"> | |
| 17 ##INFO=<ID=SGB,Number=1,Type=Float,Description="Segregation based metric."> | |
| 18 ##INFO=<ID=MQ0F,Number=1,Type=Float,Description="Fraction of MQ0 reads (smaller is better)"> | |
| 19 ##INFO=<ID=I16,Number=16,Type=Float,Description="Auxiliary tag used for calling, see description of bcf_callret1_t in bam2bcf.h"> | |
| 20 ##INFO=<ID=QS,Number=R,Type=Float,Description="Auxiliary tag used for calling"> | |
| 21 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="List of Phred-scaled genotype likelihoods"> | |
| 22 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT /tmp/tmpId8vOP/tmp3bubIE/database/files/000/dataset_734.dat |