annotate test-data/discosnp/vcf_file_paired.vcf @ 0:265fa5effd4d draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
author iuc
date Fri, 20 Oct 2017 03:15:10 -0400
parents
children 00fd0b4274fd
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
1 ##fileformat=VCFv4.1
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
2 ##filedate=2017102
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
3 ##source=VCF_creator
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
4 ##SAMPLE=file://discoRes_k_31_c_auto_D_0_P_1_b_0_coherentBWA_MEM.sam
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
5 ##REF=<ID=REF,Number=1,Type=String,Description="Allele of the path Disco aligned with the least mismatches">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
6 ##FILTER=<ID=MULTIPLE,Description="Mapping type : PASS or MULTIPLE or .">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
7 ##INFO=<ID=Ty,Number=1,Type=String,Description="SNP, INS, DEL or .">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
8 ##INFO=<ID=Rk,Number=1,Type=Float,Description="SNP rank">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
9 ##INFO=<ID=UL,Number=1,Type=Integer,Description="length of the unitig left">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
10 ##INFO=<ID=UR,Number=1,Type=Integer,Description="length of the unitig right">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
11 ##INFO=<ID=CL,Number=1,Type=Integer,Description="length of the contig left">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
12 ##INFO=<ID=CR,Number=1,Type=Integer,Description="length of the contig right">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
13 ##INFO=<ID=Genome,Number=1,Type=String,Description="Allele of the reference;for indel reference is . ">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
14 ##INFO=<ID=Sd,Number=1,Type=Integer,Description="Reverse (-1) or Forward (1) Alignement">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
15 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
16 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Cumulated depth accross samples (sum)">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
17 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled Genotype Likelihoods">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
18 ##FORMAT=<ID=AD,Number=2,Type=Integer,Description="Depth of each allele by sample">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
19 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
20 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT G1
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
21 read661_contig0_position139_M0_I0_D0_NG0______er0__indel0__rgeom0_rev0 62 3 C G . MULTIPLE Ty=SNP;Rk=0;UL=.;UR=.;CL=.;CR=.;Genome=C;Sd=1 GT:DP:PL:AD:HQ 0/1:258:1927,18,1727:124,134:0,0
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
22 read780_contig0_position26_M0_I0_D0_NG0______er0__indel0__rgeom0_rev1 43 2 A T . MULTIPLE Ty=SNP;Rk=0;UL=.;UR=.;CL=.;CR=.;Genome=A;Sd=1 GT:DP:PL:AD:HQ 0/1:160:1260,18,1020:74,86:0,0
265fa5effd4d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit a213833526146246d277ec7851165971449b501e
iuc
parents:
diff changeset
23 read656_contig0_position454_M0_I0_D0_NG0______er0__indel0__rgeom0_rev1 62 1 T A . MULTIPLE Ty=SNP;Rk=0;UL=.;UR=.;CL=.;CR=.;Genome=T;Sd=1 GT:DP:PL:AD:HQ 0/1:224:1628,17,1548:110,114:0,0