Mercurial > repos > iuc > bcftools_plugin_setgt
view test-data/cnv_baf_only.vcf @ 20:681bdf1e22ff draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit bfc4ff4956b94885638ae07a2560bac5f84fcca8
| author | iuc |
|---|---|
| date | Tue, 16 Jul 2024 17:11:40 +0000 |
| parents | 5ecd5f91b501 |
| children |
line wrap: on
line source
##fileformat=VCFv4.2 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> ##FORMAT=<ID=BAF,Number=1,Type=Float,Description="B Allele Frequency"> #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT test 10 135656 rs10904561 T G . . . GT:BAF 0/1:0.5176 10 135708 rs7917054 G A . . . GT:BAF 1/0:0.501 10 178434 rs7089889 T G . . . GT:BAF 0/1:0.4833 10 188805 rs12146291 A G . . . GT:BAF 0/1:0.4715 10 203471 rs10903451 A G . . . GT:BAF 0/0:0.0000 10 252693 rs2379078 T C . . . GT:BAF 0/0:0.0068 10 273344 rs2448378 A C . . . GT:BAF 0/0:0.0000 10 279248 rs2496278 C A . . . GT:BAF 1/0:0.6268 10 291134 rs10508201 T C . . . GT:BAF 0/1:0.4723 10 293358 exm2249181 A C . . . GT:BAF 0/0:0.0044 10 313504 rs4880568 C T . . . GT:BAF 1/1:0.9803 10 317501 rs2018975 C T . . . GT:BAF 0/0:0 10 323283 rs3740304 A G . . . GT:BAF 0/1:0.5588 10 326894 rs3125027 T C . . . GT:BAF 0/0:0.0005 10 327162 exm805022 C T . . . GT:BAF 0/0:0 10 329493 rs3815985 C A . . . GT:BAF 1/0:0.5187 10 338553 rs3125031 C T . . . GT:BAF 1/0:0.4696 10 354301 rs35198327 C T . . . GT:BAF 1/0:0.4929 10 375475 variant.11341 C T . . . GT:BAF 0/0:0.000199999999999978 10 377161 rs7070654 C T . . . GT:BAF 0/0:0 10 387060 rs7904155 G A . . . GT:BAF 1/1:0.9945 10 390962 exm805090 G A . . . GT:BAF 0/0:9.9999999999989e-05 10 390983 exm805091 G A . . . GT:BAF 0/0:0 10 394615 exm805105 G A . . . GT:BAF 0/0:0 10 402390 exm805131 G C . . . GT:BAF 0/0:0.0000 10 403792 exm805136 G C . . . GT:BAF 0/0:0.0000 10 410501 exm805166 C T . . . GT:BAF 0/0:0 10 413010 rs9787422 C T . . . GT:BAF 1/0:0.5334 10 423555 rs12245012 G A . . . GT:BAF 0/0:0.00149999999999995 10 423671 rs10904067 C T . . . GT:BAF 1/0:0.5566 10 431161 exm2271240 C T . . . GT:BAF 1/0:0.4838 10 435971 exm2249233 T C . . . GT:BAF 0/0:0.0000 10 435990 exm805214 G A . . . GT:BAF 0/0:0 10 453567 rs4881254 C T . . . GT:BAF 1/0:0.5079 10 462885 rs10904173 G A . . . GT:BAF 1/0:0.4819 10 465046 exm805254 G A . . . GT:BAF 0/0:0 10 468599 rs12415961 T C . . . GT:BAF 0/1:0.5021 10 486935 exm805280 G C . . . GT:BAF 0/0:0.0186 10 487973 rs4881313 T C . . . GT:BAF 0/1:0.5628 10 521431 exm2271370 C T . . . GT:BAF 1/1:0.9952 10 521723 rs4881336 C T . . . GT:BAF 1/1:1 10 547567 rs816599 A G . . . GT:BAF 1/1:1.0000 10 554186 rs12251997 C T . . . GT:BAF 0/0:0.00309999999999999 10 556129 rs10466270 A G . . . GT:BAF 0/1:0.5142 10 566379 rs11252926 C T . . . GT:BAF 1/0:0.5024 10 588406 rs10904450 A G . . . GT:BAF 0/0:0.0006 10 592283 rs816646 G A . . . GT:BAF 1/0:0.5006 10 601089 rs816650 C T . . . GT:BAF 0/0:0 10 615782 rs17221309 G A . . . GT:BAF 0/0:0.00319999999999998 10 635857 rs7069611 T C . . . GT:BAF 0/0:0.0013 10 669358 rs7898821 G A . . . GT:BAF 0/0:0 10 673037 rs816563 C T . . . GT:BAF 1/1:0.9065 10 680428 rs2124585 G A . . . GT:BAF 1/0:0.5212 10 712617 rs17136372 A C . . . GT:BAF 1/1:0.9992 10 738630 rs1750792 C T . . . GT:BAF 0/0:0 10 749238 rs553326 G T . . . GT:BAF 0/0:0.00229999999999997 10 754033 rs2265090 C A . . . GT:BAF 0/0:0 10 757222 rs10904546 A G . . . GT:BAF 0/0:0.0000 10 766105 rs7906313 T C . . . GT:BAF 0/0:0.0116 10 776027 rs11253377 C T . . . GT:BAF 1/1:0.9964 10 787896 rs1769242 T C . . . GT:BAF 0/0:0.0000 10 800213 rs2254501 G A . . . GT:BAF 1/1:0.9918 10 802445 rs1769215 C T . . . GT:BAF 0/0:0.00370000000000004 10 803721 rs2790381 C T . . . GT:BAF 1/1:0.9798 10 811876 rs12414585 G A . . . GT:BAF 1/0:0.516 10 813426 rs11253424 C T . . . GT:BAF 0/0:0 10 815149 rs7084027 A G . . . GT:BAF 1/1:0.9944 10 820868 rs10752019 C T . . . GT:BAF 0/0:0.0118 10 833528 exm2271241 T G . . . GT:BAF 0/1:0.4896 10 834736 rs4881530 G A . . . GT:BAF 0/0:0.00249999999999995 10 836115 rs11253444 A G . . . GT:BAF 0/1:0.5199 10 838179 rs1536337 T C . . . GT:BAF 0/0:0.0000 10 858022 rs9124 C T . . . GT:BAF 0/0:0 10 858924 exm805329 G A . . . GT:BAF 0/0:0 10 859047 exm805338 C A . . . GT:BAF 0/0:0 10 860687 exm805350 C T . . . GT:BAF 0/0:0 10 860726 exm805354 T C . . . GT:BAF 0/0:0.0000 10 860970 exm805360 A G . . . GT:BAF 0/0:0.0000 10 871110 exm805378 G C . . . GT:BAF 0/0:0.0000 10 871746 exm805386 G A . . . GT:BAF 0/0:0.00239999999999996 10 875350 exm805392 G A . . . GT:BAF 0/0:0 10 888899 exm805400 C T . . . GT:BAF 0/0:0.00470000000000004 10 888916 exm805401 T C . . . GT:BAF 0/0:0.0000 10 894838 rs12249828 C T . . . GT:BAF 1/0:0.4839 10 903950 rs11253471 A G . . . GT:BAF 0/1:0.4747 10 909757 exm805413 G A . . . GT:BAF 0/0:0 10 909766 exm805415 G A . . . GT:BAF 0/0:0 10 910074 exm805420 C T . . . GT:BAF 0/0:0.0071 10 910081 exm805421 C T . . . GT:BAF 0/0:0.002 10 927331 rs11253489 G A . . . GT:BAF 1/0:0.5325 10 931618 exm805430 G A . . . GT:BAF 0/0:0 10 931631 exm805431 C T . . . GT:BAF 0/0:0.00390000000000001 11 135656 rs10904561 T G . . . GT:BAF 0/1:0.5176 11 135708 rs7917054 G A . . . GT:BAF 1/0:0.501 11 178434 rs7089889 T G . . . GT:BAF 0/1:0.4833 11 188805 rs12146291 A G . . . GT:BAF 0/1:0.4715 11 203471 rs10903451 A G . . . GT:BAF 0/0:0.0000 11 252693 rs2379078 T C . . . GT:BAF 0/0:0.0068 11 273344 rs2448378 A C . . . GT:BAF 0/0:0.0000 11 279248 rs2496278 C A . . . GT:BAF 1/0:0.6268 11 291134 rs10508201 T C . . . GT:BAF 0/1:0.4723 11 293358 exm2249181 A C . . . GT:BAF 0/0:0.0044 11 313504 rs4880568 C T . . . GT:BAF 1/1:0.9803 11 317501 rs2018975 C T . . . GT:BAF 0/0:0 11 323283 rs3740304 A G . . . GT:BAF 0/1:0.5588 11 326894 rs3125027 T C . . . GT:BAF 0/0:0.0005 11 327162 exm805022 C T . . . GT:BAF 0/0:0 11 329493 rs3815985 C A . . . GT:BAF 1/0:0.5187 11 338553 rs3125031 C T . . . GT:BAF 1/0:0.4696 11 354301 rs35198327 C T . . . GT:BAF 1/0:0.4929 11 375475 variant.11341 C T . . . GT:BAF 0/0:0.000199999999999978 11 377161 rs7070654 C T . . . GT:BAF 0/0:0 11 387060 rs7904155 G A . . . GT:BAF 1/1:0.9945 11 390962 exm805090 G A . . . GT:BAF 0/0:9.9999999999989e-05 11 390983 exm805091 G A . . . GT:BAF 0/0:0 11 394615 exm805105 G A . . . GT:BAF 0/0:0 11 402390 exm805131 G C . . . GT:BAF 0/0:0.0000 11 403792 exm805136 G C . . . GT:BAF 0/0:0.0000 11 410501 exm805166 C T . . . GT:BAF 0/0:0 11 413010 rs9787422 C T . . . GT:BAF 1/0:0.5334 11 423555 rs12245012 G A . . . GT:BAF 0/0:0.00149999999999995 11 423671 rs10904067 C T . . . GT:BAF 1/0:0.5566 11 431161 exm2271240 C T . . . GT:BAF 1/0:0.4838 11 435971 exm2249233 T C . . . GT:BAF 0/0:0.0000 11 435990 exm805214 G A . . . GT:BAF 0/0:0 11 453567 rs4881254 C T . . . GT:BAF 1/0:0.5079 11 462885 rs10904173 G A . . . GT:BAF 1/0:0.4819 11 465046 exm805254 G A . . . GT:BAF 0/0:0 11 468599 rs12415961 T C . . . GT:BAF 0/1:0.5021 11 486935 exm805280 G C . . . GT:BAF 0/0:0.0186 11 487973 rs4881313 T C . . . GT:BAF 0/1:0.5628 11 521431 exm2271370 C T . . . GT:BAF 1/1:0.9952 11 521723 rs4881336 C T . . . GT:BAF 1/1:1 11 547567 rs816599 A G . . . GT:BAF 1/1:1.0000 11 554186 rs12251997 C T . . . GT:BAF 0/0:0.00309999999999999 11 556129 rs10466270 A G . . . GT:BAF 0/1:0.5142 11 566379 rs11252926 C T . . . GT:BAF 1/0:0.5024 11 588406 rs10904450 A G . . . GT:BAF 0/0:0.0006 11 592283 rs816646 G A . . . GT:BAF 1/0:0.5006 11 601089 rs816650 C T . . . GT:BAF 0/0:0 11 615782 rs17221309 G A . . . GT:BAF 0/0:0.00319999999999998 11 635857 rs7069611 T C . . . GT:BAF 0/0:0.0013 11 669358 rs7898821 G A . . . GT:BAF 0/0:0 11 673037 rs816563 C T . . . GT:BAF 1/1:0.9065 11 680428 rs2124585 G A . . . GT:BAF 1/0:0.5212 11 712617 rs17136372 A C . . . GT:BAF 1/1:0.9992 11 738630 rs1750792 C T . . . GT:BAF 0/0:0 11 749238 rs553326 G T . . . GT:BAF 0/0:0.00229999999999997 11 754033 rs2265090 C A . . . GT:BAF 0/0:0 11 757222 rs10904546 A G . . . GT:BAF 0/0:0.0000 11 766105 rs7906313 T C . . . GT:BAF 0/0:0.0116 11 776027 rs11253377 C T . . . GT:BAF 1/1:0.9964 11 787896 rs1769242 T C . . . GT:BAF 0/0:0.0000 11 800213 rs2254501 G A . . . GT:BAF 1/1:0.9918 11 802445 rs1769215 C T . . . GT:BAF 0/0:0.00370000000000004 11 803721 rs2790381 C T . . . GT:BAF 1/1:0.9798 11 811876 rs12414585 G A . . . GT:BAF 1/0:0.516 11 813426 rs11253424 C T . . . GT:BAF 0/0:0 11 815149 rs7084027 A G . . . GT:BAF 1/1:0.9944 11 820868 rs10752019 C T . . . GT:BAF 0/0:0.0118 11 833528 exm2271241 T G . . . GT:BAF 0/1:0.4896 11 834736 rs4881530 G A . . . GT:BAF 0/0:0.00249999999999995 11 836115 rs11253444 A G . . . GT:BAF 0/1:0.5199 11 838179 rs1536337 T C . . . GT:BAF 0/0:0.0000 11 858022 rs9124 C T . . . GT:BAF 0/0:0 11 858924 exm805329 G A . . . GT:BAF 0/0:0 11 859047 exm805338 C A . . . GT:BAF 0/0:0 11 860687 exm805350 C T . . . GT:BAF 0/0:0 11 860726 exm805354 T C . . . GT:BAF 0/0:0.0000 11 860970 exm805360 A G . . . GT:BAF 0/0:0.0000 11 871110 exm805378 G C . . . GT:BAF 0/0:0.0000 11 871746 exm805386 G A . . . GT:BAF 0/0:0.00239999999999996 11 875350 exm805392 G A . . . GT:BAF 0/0:0 11 888899 exm805400 C T . . . GT:BAF 0/0:0.00470000000000004 11 888916 exm805401 T C . . . GT:BAF 0/0:0.0000 11 894838 rs12249828 C T . . . GT:BAF 1/0:0.4839 11 903950 rs11253471 A G . . . GT:BAF 0/1:0.4747 11 909757 exm805413 G A . . . GT:BAF 0/0:0 11 909766 exm805415 G A . . . GT:BAF 0/0:0 11 910074 exm805420 C T . . . GT:BAF 0/0:0.0071 11 910081 exm805421 C T . . . GT:BAF 0/0:0.002 11 927331 rs11253489 G A . . . GT:BAF 1/0:0.5325 11 931618 exm805430 G A . . . GT:BAF 0/0:0 11 931631 exm805431 C T . . . GT:BAF 0/0:0.00390000000000001