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comparison test-data/output_extended.vcf @ 6:48e97429a749 draft default tip

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/lumpy_sv commit 37c0f0938a5cad74c954a89827a6a08bbbb81cb0
author artbio
date Mon, 08 Jul 2024 22:23:10 +0000
parents 796552c157de
children
comparison
equal deleted inserted replaced
5:6ae3a402b9af 6:48e97429a749
29 ##FORMAT=<ID=SU,Number=1,Type=Integer,Description="Number of pieces of evidence supporting the variant"> 29 ##FORMAT=<ID=SU,Number=1,Type=Integer,Description="Number of pieces of evidence supporting the variant">
30 ##FORMAT=<ID=PE,Number=1,Type=Integer,Description="Number of paired-end reads supporting the variant"> 30 ##FORMAT=<ID=PE,Number=1,Type=Integer,Description="Number of paired-end reads supporting the variant">
31 ##FORMAT=<ID=SR,Number=1,Type=Integer,Description="Number of split reads supporting the variant"> 31 ##FORMAT=<ID=SR,Number=1,Type=Integer,Description="Number of split reads supporting the variant">
32 ##FORMAT=<ID=BD,Number=1,Type=Integer,Description="Amount of BED evidence supporting the variant"> 32 ##FORMAT=<ID=BD,Number=1,Type=Integer,Description="Amount of BED evidence supporting the variant">
33 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sr_input_bam 33 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sr_input_bam
34 Evidence: M00860:26:000000000-A6UGV:1:1101:22421:6659_2 hg38_gold_U07000.1 8 50 hg38_gold_U07000.1 1885 1932 0x17456f0 0 - + id:1 weight:1
35 Evidence: M00860:26:000000000-A6UGV:1:1101:21503:6234_2 hg38_gold_U07000.1 13 52 hg38_gold_U07000.1 1885 1933 0x17451d0 0 - + id:1 weight:1
36 Evidence: M00860:26:000000000-A6UGV:1:1101:14108:4338_2 hg38_gold_U07000.1 8 53 hg38_gold_U07000.1 1879 1932 0x1747410 0 - + id:1 weight:1
37 Evidence: M00860:26:000000000-A6UGV:1:1101:22281:3587_2 hg38_gold_U07000.1 8 52 hg38_gold_U07000.1 1879 1944 0x174d920 0 - + id:1 weight:1
38 Evidence: M00860:26:000000000-A6UGV:1:1101:9129:3504_2 hg38_gold_U07000.1 13 50 hg38_gold_U07000.1 1872 1932 0x1748e60 0 + - id:1 weight:1
39 Evidence: M00860:26:000000000-A6UGV:1:1101:10154:5887_2 hg38_gold_U07000.1 10 41 hg38_gold_U07000.1 1872 1931 0x17499d0 0 - + id:1 weight:1
40 Evidence: M00860:26:000000000-A6UGV:1:1101:9382:5932_2 hg38_gold_U07000.1 8 53 hg38_gold_U07000.1 1871 1921 0x174d580 0 + - id:1 weight:1
41 Evidence: M00860:26:000000000-A6UGV:1:1101:22747:6442_2 hg38_gold_U07000.1 8 52 hg38_gold_U07000.1 1870 1933 0x1748cc0 0 - + id:1 weight:1
42 Evidence: M00860:26:000000000-A6UGV:1:1101:6411:6050_2 hg38_gold_U07000.1 13 49 hg38_gold_U07000.1 1868 1932 0x17486a0 0 + - id:1 weight:1
43 Evidence: M00860:26:000000000-A6UGV:1:1101:23865:5544_2 hg38_gold_U07000.1 13 56 hg38_gold_U07000.1 1868 1923 0x1748480 0 + - id:1 weight:1
44 Evidence: M00860:26:000000000-A6UGV:1:1101:20349:5252_2 hg38_gold_U07000.1 13 51 hg38_gold_U07000.1 1868 1931 0x174ce80 0 + - id:1 weight:1
45 Evidence: M00860:26:000000000-A6UGV:1:1101:22571:4203_2 hg38_gold_U07000.1 13 50 hg38_gold_U07000.1 1868 1926 0x1745050 0 + - id:1 weight:1
46 Evidence: M00860:26:000000000-A6UGV:1:1101:16719:4051_2 hg38_gold_U07000.1 8 51 hg38_gold_U07000.1 1868 1932 0x1747b70 0 + - id:1 weight:1
47 Evidence: M00860:26:000000000-A6UGV:1:1101:8961:3182_2 hg38_gold_U07000.1 15 51 hg38_gold_U07000.1 1868 1917 0x1744130 0 + - id:1 weight:1
48 Evidence: M00860:26:000000000-A6UGV:1:1101:18427:2937_2 hg38_gold_U07000.1 8 41 hg38_gold_U07000.1 1868 1932 0x174b760 0 + - id:1 weight:1
49 Evidence: M00860:26:000000000-A6UGV:1:1101:21139:5913_2 hg38_gold_U07000.1 12 50 hg38_gold_U07000.1 1868 1924 0x174d640 0 - + id:1 weight:1
50 Evidence: M00860:26:000000000-A6UGV:1:1101:10523:5853_2 hg38_gold_U07000.1 8 50 hg38_gold_U07000.1 1868 1935 0x174de60 0 - + id:1 weight:1
51 Evidence: M00860:26:000000000-A6UGV:1:1101:16433:5445_2 hg38_gold_U07000.1 13 51 hg38_gold_U07000.1 1868 1932 0x174d870 0 - + id:1 weight:1
52 Evidence: M00860:26:000000000-A6UGV:1:1101:12490:4165_2 hg38_gold_U07000.1 13 58 hg38_gold_U07000.1 1868 1917 0x174d9f0 0 - + id:1 weight:1
53 hg38_gold_U07000.1 14 1_1 N [hg38_gold_U07000.1:1876[N . . SVTYPE=BND;STRANDS=--:19;EVENT=1;MATEID=1_2;CIPOS=0,0;CIEND=0,2;CIPOS95=0,0;CIEND95=0,0;SU=19;SR=19;PRPOS=1;PREND=0.99996,3.98091e-05,1.58483e-09 GT:SU:SR ./.:19:19 34 hg38_gold_U07000.1 14 1_1 N [hg38_gold_U07000.1:1876[N . . SVTYPE=BND;STRANDS=--:19;EVENT=1;MATEID=1_2;CIPOS=0,0;CIEND=0,2;CIPOS95=0,0;CIEND95=0,0;SU=19;SR=19;PRPOS=1;PREND=0.99996,3.98091e-05,1.58483e-09 GT:SU:SR ./.:19:19
54 hg38_gold_U07000.1 1876 1_2 N [hg38_gold_U07000.1:14[N . . SVTYPE=BND;STRANDS=--:19;SECONDARY;EVENT=1;MATEID=1_1;CIPOS=0,2;CIEND=0,0;CIPOS95=0,0;CIEND95=0,0;SU=19;SR=19;PRPOS=0.99996,3.98091e-05,1.58483e-09;PREND=1 GT:SU:SR ./.:19:19 35 hg38_gold_U07000.1 1876 1_2 N [hg38_gold_U07000.1:14[N . . SVTYPE=BND;STRANDS=--:19;SECONDARY;EVENT=1;MATEID=1_1;CIPOS=0,2;CIEND=0,0;CIPOS95=0,0;CIEND95=0,0;SU=19;SR=19;PRPOS=0.99996,3.98091e-05,1.58483e-09;PREND=1 GT:SU:SR ./.:19:19
55 Evidence: M00860:26:000000000-A6UGV:1:1101:7043:5583_2 hg38_gold_U07000.1 13 56 hg38_gold_U07000.1 1899 1935 0x1742010 0 - + id:1 weight:1
56 Evidence: M00860:26:000000000-A6UGV:1:1101:19472:2185_2 hg38_gold_U07000.1 0 56 hg38_gold_U07000.1 1898 1945 0x1744270 0 + - id:1 weight:1
57 Evidence: M00860:26:000000000-A6UGV:1:1101:9324:6462_2 hg38_gold_U07000.1 0 51 hg38_gold_U07000.1 1898 1933 0x1748fd0 0 - + id:1 weight:1
58 Evidence: M00860:26:000000000-A6UGV:1:1101:23764:6273_2 hg38_gold_U07000.1 13 48 hg38_gold_U07000.1 1898 1945 0x17490a0 0 - + id:1 weight:1
59 Evidence: M00860:26:000000000-A6UGV:1:1101:7772:5906_2 hg38_gold_U07000.1 0 54 hg38_gold_U07000.1 1898 1942 0x1747240 0 - + id:1 weight:1
60 Evidence: M00860:26:000000000-A6UGV:1:1101:6971:4906_2 hg38_gold_U07000.1 13 51 hg38_gold_U07000.1 1898 1935 0x1746170 0 - + id:1 weight:1
61 Evidence: M00860:26:000000000-A6UGV:1:1101:10511:4776_2 hg38_gold_U07000.1 8 50 hg38_gold_U07000.1 1898 1934 0x174a840 0 - + id:1 weight:1
62 Evidence: M00860:26:000000000-A6UGV:1:1101:19677:3538_2 hg38_gold_U07000.1 13 51 hg38_gold_U07000.1 1898 1940 0x174c190 0 - + id:1 weight:1
63 Evidence: M00860:26:000000000-A6UGV:1:1101:22109:4922_2 hg38_gold_U07000.1 13 53 hg38_gold_U07000.1 1897 1933 0x1743ac0 0 + - id:1 weight:1
64 Evidence: M00860:26:000000000-A6UGV:1:1101:14027:4470_2 hg38_gold_U07000.1 0 51 hg38_gold_U07000.1 1896 1933 0x174b500 0 + - id:1 weight:1
65 Evidence: M00860:26:000000000-A6UGV:1:1101:22736:5607_2 hg38_gold_U07000.1 13 57 hg38_gold_U07000.1 1893 1945 0x174cf30 0 + - id:1 weight:1
66 Evidence: M00860:26:000000000-A6UGV:1:1101:10768:5508_2 hg38_gold_U07000.1 13 56 hg38_gold_U07000.1 1893 1935 0x17480b0 0 + - id:1 weight:1
67 Evidence: M00860:26:000000000-A6UGV:1:1101:14449:3437_2 hg38_gold_U07000.1 13 48 hg38_gold_U07000.1 1893 1933 0x174b150 0 + - id:1 weight:1
68 Evidence: M00860:26:000000000-A6UGV:1:1101:18009:3360_2 hg38_gold_U07000.1 13 47 hg38_gold_U07000.1 1893 1925 0x1749390 0 + - id:1 weight:1
69 Evidence: M00860:26:000000000-A6UGV:1:1101:16615:6513_2 hg38_gold_U07000.1 13 51 hg38_gold_U07000.1 1893 1931 0x174b860 0 - + id:1 weight:1
70 Evidence: M00860:26:000000000-A6UGV:1:1101:19235:5076_2 hg38_gold_U07000.1 13 45 hg38_gold_U07000.1 1893 1932 0x174a790 0 - + id:1 weight:1
71 Evidence: M00860:26:000000000-A6UGV:1:1101:14629:4828_2 hg38_gold_U07000.1 8 50 hg38_gold_U07000.1 1893 1932 0x174b360 0 - + id:1 weight:1
72 Evidence: M00860:26:000000000-A6UGV:1:1101:22780:4994_2 hg38_gold_U07000.1 13 50 hg38_gold_U07000.1 1892 1924 0x174aaf0 0 - + id:1 weight:1
73 Evidence: M00860:26:000000000-A6UGV:1:1101:12387:3929_2 hg38_gold_U07000.1 13 51 hg38_gold_U07000.1 1892 1931 0x174c000 0 - + id:1 weight:1
74 hg38_gold_U07000.1 10 2_1 N [hg38_gold_U07000.1:1897[N . . SVTYPE=BND;STRANDS=--:19;EVENT=2;MATEID=2_2;CIPOS=-1,0;CIEND=-7,5;CIPOS95=0,1;CIEND95=-2,1;IMPRECISE;SU=19;SR=19;PRPOS=9.99999e-13,9.99999e-07;PREND=4.89496e-31,1.94872e-23,7.75799e-16,3.08851e-08,0.0308851,0.0775799,0.194872,0.489496,0.194872,0.0122956,1.94872e-09,4.89496e-17,1.22956e-24 GT:SU:SR ./.:19:19 36 hg38_gold_U07000.1 10 2_1 N [hg38_gold_U07000.1:1897[N . . SVTYPE=BND;STRANDS=--:19;EVENT=2;MATEID=2_2;CIPOS=-1,0;CIEND=-7,5;CIPOS95=0,1;CIEND95=-2,1;IMPRECISE;SU=19;SR=19;PRPOS=9.99999e-13,9.99999e-07;PREND=4.89496e-31,1.94872e-23,7.75799e-16,3.08851e-08,0.0308851,0.0775799,0.194872,0.489496,0.194872,0.0122956,1.94872e-09,4.89496e-17,1.22956e-24 GT:SU:SR ./.:19:19
75 hg38_gold_U07000.1 1897 2_2 N [hg38_gold_U07000.1:10[N . . SVTYPE=BND;STRANDS=--:19;SECONDARY;EVENT=2;MATEID=2_1;CIPOS=-7,5;CIEND=-1,0;CIPOS95=-2,1;CIEND95=0,1;IMPRECISE;SU=19;SR=19;PRPOS=4.89496e-31,1.94872e-23,7.75799e-16,3.08851e-08,0.0308851,0.0775799,0.194872,0.489496,0.194872,0.0122956,1.94872e-09,4.89496e-17,1.22956e-24;PREND=9.99999e-13,9.99999e-07 GT:SU:SR ./.:19:19 37 hg38_gold_U07000.1 1897 2_2 N [hg38_gold_U07000.1:10[N . . SVTYPE=BND;STRANDS=--:19;SECONDARY;EVENT=2;MATEID=2_1;CIPOS=-7,5;CIEND=-1,0;CIPOS95=-2,1;CIEND95=0,1;IMPRECISE;SU=19;SR=19;PRPOS=4.89496e-31,1.94872e-23,7.75799e-16,3.08851e-08,0.0308851,0.0775799,0.194872,0.489496,0.194872,0.0122956,1.94872e-09,4.89496e-17,1.22956e-24;PREND=9.99999e-13,9.99999e-07 GT:SU:SR ./.:19:19