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annotate test-data/gnomadv2_results/Nonessential_Host_Genes_Detailed.txt @ 7:2b1154ae7e21 draft default tip

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"planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
author nml
date Thu, 29 Jul 2021 19:17:40 +0000
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7
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
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diff changeset
1 Chromosome Position_Start RSID Reference_Allele Alternate_Allele Score Quality LoF_Variant LoF_Annotation HGNC_Symbol Ensembl Code HGVSc african-AC african-AN african-AF ashkenazi-jewish-AC ashkenazi-jewish-AN ashkenazi-jewish-AF european-non-finnish-AC european-non-finnish-AN european-non-finnish-AF finnish-AC finnish-AN finnish-AF south-asian-AC south-asian-AN south-asian-AF latino-AC latino-AN latino-AF east-asian-AC east-asian-AN east-asian-AF other-AC other-AF other-AN male-AC male-AF male-AN female-AC female-AN female-AF
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
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diff changeset
2 3 46414935 rs938517991 AT A 9974.16 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000292303.4:c.546delT 0 16192 0.0000000000e+00 0 10066 0.0000000000e+00 2 113380 1.7639800000e-05 0 21600 0.0000000000e+00 0 30616 0.0000000000e+00 0 34578 0.0000000000e+00 0 18394 0.0000000000e+00 0 0.0000000000e+00 6120 0 0.0000000000e+00 135678 2 115268 1.7350900000e-05
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
3 3 46414935 rs938517991 AT A 9974.16 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000343801.4:c.546delT 0 16192 0.0000000000e+00 0 10066 0.0000000000e+00 2 113380 1.7639800000e-05 0 21600 0.0000000000e+00 0 30616 0.0000000000e+00 0 34578 0.0000000000e+00 0 18394 0.0000000000e+00 0 0.0000000000e+00 6120 0 0.0000000000e+00 135678 2 115268 1.7350900000e-05
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
4 3 46414935 rs938517991 AT A 9974.16 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000445772.1:c.546delT 0 16192 0.0000000000e+00 0 10066 0.0000000000e+00 2 113380 1.7639800000e-05 0 21600 0.0000000000e+00 0 30616 0.0000000000e+00 0 34578 0.0000000000e+00 0 18394 0.0000000000e+00 0 0.0000000000e+00 6120 0 0.0000000000e+00 135678 2 115268 1.7350900000e-05
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
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diff changeset
5 3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 74264261.52 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000292303.4:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA 311 16196 1.9202300000e-02 1296 10068 1.2872500000e-01 12203 113462 1.0755100000e-01 2881 21580 1.3350300000e-01 489 30610 1.5975200000e-02 1014 34580 2.9323300000e-02 2 18392 1.0874300000e-04 444 7.2572700000e-02 6118 10108 7.4499900000e-02 135678 8532 115328 7.3980300000e-02
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
6 3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 74264261.52 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000343801.4:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA 311 16196 1.9202300000e-02 1296 10068 1.2872500000e-01 12203 113462 1.0755100000e-01 2881 21580 1.3350300000e-01 489 30610 1.5975200000e-02 1014 34580 2.9323300000e-02 2 18392 1.0874300000e-04 444 7.2572700000e-02 6118 10108 7.4499900000e-02 135678 8532 115328 7.3980300000e-02
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
7 3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 74264261.52 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000445772.1:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA 311 16196 1.9202300000e-02 1296 10068 1.2872500000e-01 12203 113462 1.0755100000e-01 2881 21580 1.3350300000e-01 489 30610 1.5975200000e-02 1014 34580 2.9323300000e-02 2 18392 1.0874300000e-04 444 7.2572700000e-02 6118 10108 7.4499900000e-02 135678 8532 115328 7.3980300000e-02
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
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diff changeset
8 3 46415066 rs146972949 C T 120238.89 PASS T stop_gained CCR5 ENSG00000160791 ENST00000292303.4:c.673C>T 23 16252 1.4152100000e-03 0 10016 0.0000000000e+00 8 113418 7.0535500000e-05 0 21590 0.0000000000e+00 0 30566 0.0000000000e+00 3 34516 8.6916200000e-05 0 18382 0.0000000000e+00 0 0.0000000000e+00 6108 14 1.0326900000e-04 135568 20 115280 1.7349100000e-04
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
9 3 46415066 rs146972949 C T 120238.89 PASS T stop_gained CCR5 ENSG00000160791 ENST00000343801.4:c.673C>T 23 16252 1.4152100000e-03 0 10016 0.0000000000e+00 8 113418 7.0535500000e-05 0 21590 0.0000000000e+00 0 30566 0.0000000000e+00 3 34516 8.6916200000e-05 0 18382 0.0000000000e+00 0 0.0000000000e+00 6108 14 1.0326900000e-04 135568 20 115280 1.7349100000e-04
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
10 3 46415066 rs146972949 C T 120238.89 PASS T stop_gained CCR5 ENSG00000160791 ENST00000445772.1:c.673C>T 23 16252 1.4152100000e-03 0 10016 0.0000000000e+00 8 113418 7.0535500000e-05 0 21590 0.0000000000e+00 0 30566 0.0000000000e+00 3 34516 8.6916200000e-05 0 18382 0.0000000000e+00 0 0.0000000000e+00 6108 14 1.0326900000e-04 135568 20 115280 1.7349100000e-04
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
11 3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 1947603.90 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000292303.4:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA 168 8706 1.9297000000e-02 35 290 1.2069000000e-01 1621 15392 1.0531400000e-01 478 3468 1.3783200000e-01 - - - 23 848 2.7122600000e-02 0 1558 0.0000000000e+00 102 9.3922700000e-02 1086 1289 7.3893600000e-02 17444 1138 13904 8.1847000000e-02
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
12 3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 1947603.90 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000343801.4:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA 168 8706 1.9297000000e-02 35 290 1.2069000000e-01 1621 15392 1.0531400000e-01 478 3468 1.3783200000e-01 - - - 23 848 2.7122600000e-02 0 1558 0.0000000000e+00 102 9.3922700000e-02 1086 1289 7.3893600000e-02 17444 1138 13904 8.1847000000e-02
2b1154ae7e21 "planemo upload for repository https://github.com/phac-nml/gnali/ commit c3a811e4bb8ba8a718047c3324809175ad23291b"
nml
parents:
diff changeset
13 3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 1947603.90 PASS - frameshift_variant CCR5 ENSG00000160791 ENST00000445772.1:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA 168 8706 1.9297000000e-02 35 290 1.2069000000e-01 1621 15392 1.0531400000e-01 478 3468 1.3783200000e-01 - - - 23 848 2.7122600000e-02 0 1558 0.0000000000e+00 102 9.3922700000e-02 1086 1289 7.3893600000e-02 17444 1138 13904 8.1847000000e-02