Mercurial > repos > iuc > bcftools_plugin_counts

annotate test-data/cnv_baf_only.vcf @ 16:69d8b7567281 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit c45135e52ae5039e09272ac6f504d0ceb574aa70
author iuc
date Sat, 23 Jul 2022 13:30:43 +0000
parents ed2ebaaded62
children
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ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
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1 ##fileformat=VCFv4.2
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
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2 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
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3 ##FORMAT=<ID=BAF,Number=1,Type=Float,Description="B Allele Frequency">
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4 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT test
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ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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81 10 860726 exm805354 T C . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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82 10 860970 exm805360 A G . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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83 10 871110 exm805378 G C . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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84 10 871746 exm805386 G A . . . GT:BAF 0/0:0.00239999999999996
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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85 10 875350 exm805392 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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86 10 888899 exm805400 C T . . . GT:BAF 0/0:0.00470000000000004
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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87 10 888916 exm805401 T C . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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88 10 894838 rs12249828 C T . . . GT:BAF 1/0:0.4839
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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89 10 903950 rs11253471 A G . . . GT:BAF 0/1:0.4747
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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90 10 909757 exm805413 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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91 10 909766 exm805415 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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92 10 910074 exm805420 C T . . . GT:BAF 0/0:0.0071
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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93 10 910081 exm805421 C T . . . GT:BAF 0/0:0.002
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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94 10 927331 rs11253489 G A . . . GT:BAF 1/0:0.5325
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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95 10 931618 exm805430 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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96 10 931631 exm805431 C T . . . GT:BAF 0/0:0.00390000000000001
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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97 11 135656 rs10904561 T G . . . GT:BAF 0/1:0.5176
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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98 11 135708 rs7917054 G A . . . GT:BAF 1/0:0.501
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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99 11 178434 rs7089889 T G . . . GT:BAF 0/1:0.4833
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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100 11 188805 rs12146291 A G . . . GT:BAF 0/1:0.4715
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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101 11 203471 rs10903451 A G . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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102 11 252693 rs2379078 T C . . . GT:BAF 0/0:0.0068
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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103 11 273344 rs2448378 A C . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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104 11 279248 rs2496278 C A . . . GT:BAF 1/0:0.6268
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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105 11 291134 rs10508201 T C . . . GT:BAF 0/1:0.4723
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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106 11 293358 exm2249181 A C . . . GT:BAF 0/0:0.0044
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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107 11 313504 rs4880568 C T . . . GT:BAF 1/1:0.9803
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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108 11 317501 rs2018975 C T . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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109 11 323283 rs3740304 A G . . . GT:BAF 0/1:0.5588
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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110 11 326894 rs3125027 T C . . . GT:BAF 0/0:0.0005
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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111 11 327162 exm805022 C T . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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112 11 329493 rs3815985 C A . . . GT:BAF 1/0:0.5187
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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113 11 338553 rs3125031 C T . . . GT:BAF 1/0:0.4696
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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114 11 354301 rs35198327 C T . . . GT:BAF 1/0:0.4929
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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115 11 375475 variant.11341 C T . . . GT:BAF 0/0:0.000199999999999978
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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116 11 377161 rs7070654 C T . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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117 11 387060 rs7904155 G A . . . GT:BAF 1/1:0.9945
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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118 11 390962 exm805090 G A . . . GT:BAF 0/0:9.9999999999989e-05
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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119 11 390983 exm805091 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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120 11 394615 exm805105 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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121 11 402390 exm805131 G C . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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122 11 403792 exm805136 G C . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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123 11 410501 exm805166 C T . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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124 11 413010 rs9787422 C T . . . GT:BAF 1/0:0.5334
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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125 11 423555 rs12245012 G A . . . GT:BAF 0/0:0.00149999999999995
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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126 11 423671 rs10904067 C T . . . GT:BAF 1/0:0.5566
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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127 11 431161 exm2271240 C T . . . GT:BAF 1/0:0.4838
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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128 11 435971 exm2249233 T C . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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129 11 435990 exm805214 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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130 11 453567 rs4881254 C T . . . GT:BAF 1/0:0.5079
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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131 11 462885 rs10904173 G A . . . GT:BAF 1/0:0.4819
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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132 11 465046 exm805254 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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133 11 468599 rs12415961 T C . . . GT:BAF 0/1:0.5021
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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134 11 486935 exm805280 G C . . . GT:BAF 0/0:0.0186
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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135 11 487973 rs4881313 T C . . . GT:BAF 0/1:0.5628
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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136 11 521431 exm2271370 C T . . . GT:BAF 1/1:0.9952
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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137 11 521723 rs4881336 C T . . . GT:BAF 1/1:1
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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138 11 547567 rs816599 A G . . . GT:BAF 1/1:1.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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139 11 554186 rs12251997 C T . . . GT:BAF 0/0:0.00309999999999999
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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140 11 556129 rs10466270 A G . . . GT:BAF 0/1:0.5142
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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141 11 566379 rs11252926 C T . . . GT:BAF 1/0:0.5024
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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142 11 588406 rs10904450 A G . . . GT:BAF 0/0:0.0006
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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143 11 592283 rs816646 G A . . . GT:BAF 1/0:0.5006
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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144 11 601089 rs816650 C T . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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145 11 615782 rs17221309 G A . . . GT:BAF 0/0:0.00319999999999998
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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146 11 635857 rs7069611 T C . . . GT:BAF 0/0:0.0013
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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147 11 669358 rs7898821 G A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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148 11 673037 rs816563 C T . . . GT:BAF 1/1:0.9065
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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149 11 680428 rs2124585 G A . . . GT:BAF 1/0:0.5212
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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150 11 712617 rs17136372 A C . . . GT:BAF 1/1:0.9992
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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151 11 738630 rs1750792 C T . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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152 11 749238 rs553326 G T . . . GT:BAF 0/0:0.00229999999999997
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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153 11 754033 rs2265090 C A . . . GT:BAF 0/0:0
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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154 11 757222 rs10904546 A G . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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155 11 766105 rs7906313 T C . . . GT:BAF 0/0:0.0116
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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156 11 776027 rs11253377 C T . . . GT:BAF 1/1:0.9964
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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157 11 787896 rs1769242 T C . . . GT:BAF 0/0:0.0000
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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158 11 800213 rs2254501 G A . . . GT:BAF 1/1:0.9918
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
parents:
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159 11 802445 rs1769215 C T . . . GT:BAF 0/0:0.00370000000000004
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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160 11 803721 rs2790381 C T . . . GT:BAF 1/1:0.9798
ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
iuc
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ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
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ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
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ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
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ed2ebaaded62 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
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