Mercurial > repos > iuc > colibread_discosnp_rad

annotate test-data/discosnp/vcf_file_paired.vcf @ 1:62a7874355b7 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit b24ba669c32dd33efcc60eee595a18abd639ca7a
author iuc
date Wed, 05 Sep 2018 09:01:59 -0400
parents 86b6b719e47d
children 2af5a5ca9c87
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86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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1 ##fileformat=VCFv4.1
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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2 ##filedate=2017102
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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3 ##source=VCF_creator
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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4 ##SAMPLE=file://discoRes_k_31_c_auto_D_0_P_1_b_0_coherentBWA_MEM.sam
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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5 ##REF=<ID=REF,Number=1,Type=String,Description="Allele of the path Disco aligned with the least mismatches">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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6 ##FILTER=<ID=MULTIPLE,Description="Mapping type : PASS or MULTIPLE or .">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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7 ##INFO=<ID=Ty,Number=1,Type=String,Description="SNP, INS, DEL or .">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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8 ##INFO=<ID=Rk,Number=1,Type=Float,Description="SNP rank">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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9 ##INFO=<ID=UL,Number=1,Type=Integer,Description="length of the unitig left">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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10 ##INFO=<ID=UR,Number=1,Type=Integer,Description="length of the unitig right">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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11 ##INFO=<ID=CL,Number=1,Type=Integer,Description="length of the contig left">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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12 ##INFO=<ID=CR,Number=1,Type=Integer,Description="length of the contig right">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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13 ##INFO=<ID=Genome,Number=1,Type=String,Description="Allele of the reference;for indel reference is . ">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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14 ##INFO=<ID=Sd,Number=1,Type=Integer,Description="Reverse (-1) or Forward (1) Alignement">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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15 ##INFO=<ID=XA,Number=0/1,Type=String,Description="Other mapping positions (chromosome_position). Position is negative in case of Reverse alignment. The position designs the starting position of the alignment, not the position of the variant itself.">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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16 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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17 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Cumulated depth accross samples (sum)">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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18 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled Genotype Likelihoods">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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19 ##FORMAT=<ID=AD,Number=2,Type=Integer,Description="Depth of each allele by sample">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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20 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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21 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT G1
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
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22 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
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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23 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
86b6b719e47d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7e976e65d4630ce8b485efd1d50a168ba98276e6
iuc
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24 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