Mercurial > repos > iuc > tbvcfreport
diff test-data/vcf_with_no_protein_report.html @ 3:42818629ec4c draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/tbvcfreport commit f54e7cfd572498517dde7fe6afab47a20e3fcb17
| author | iuc |
|---|---|
| date | Fri, 31 May 2024 20:06:49 +0000 |
| parents | 4934c0ac6197 |
| children |
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--- a/test-data/vcf_with_no_protein_report.html Thu Mar 17 07:33:00 2022 +0000 +++ b/test-data/vcf_with_no_protein_report.html Fri May 31 20:06:49 2024 +0000 @@ -30,7 +30,7 @@ <th scope="col">GENE</th> <th scope="col">LOCUS</th> <th scope="col">PRODUCT</th> - <th scope="col">TYPE</th> + <th scope="col">IS_SNV</th> <th scope="col">EFFECT</th> <th scope="col">POS</th> <th scope="col">REF</th> @@ -55,10 +55,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=O69720" target="_blank" rel="noreferrer noopener">O69720</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4200220..4200220&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4200220..4200220" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4200220..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4200220..None" target="_blank" rel="noreferrer noopener">4200220</a> </td> <td>G</td> @@ -82,10 +82,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=O69722" target="_blank" rel="noreferrer noopener">O69722</a> </td> - <td>snp</td> + <td>True</td> <td>synonymous_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4202383..4202383&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4202383..4202383" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4202383..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4202383..None" target="_blank" rel="noreferrer noopener">4202383</a> </td> <td>C</td> @@ -114,10 +114,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=O69725" target="_blank" rel="noreferrer noopener">O69725</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4205120..4205120&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4205120..4205120" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4205120..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4205120..None" target="_blank" rel="noreferrer noopener">4205120</a> </td> <td>G</td> @@ -146,10 +146,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=O69729" target="_blank" rel="noreferrer noopener">O69729</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4210876..4210876&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4210876..4210876" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4210876..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4210876..None" target="_blank" rel="noreferrer noopener">4210876</a> </td> <td>C</td> @@ -173,10 +173,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P72036" target="_blank" rel="noreferrer noopener">P72036</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4214747..4214747&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4214747..4214747" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4214747..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4214747..None" target="_blank" rel="noreferrer noopener">4214747</a> </td> <td>C</td> @@ -200,10 +200,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P72037" target="_blank" rel="noreferrer noopener">P72037</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4215484..4215484&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4215484..4215484" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4215484..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4215484..None" target="_blank" rel="noreferrer noopener">4215484</a> </td> <td>C</td> @@ -227,10 +227,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P9WML5" target="_blank" rel="noreferrer noopener">P9WML5</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4217557..4217557&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4217557..4217557" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4217557..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4217557..None" target="_blank" rel="noreferrer noopener">4217557</a> </td> <td>G</td> @@ -277,10 +277,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P72043" target="_blank" rel="noreferrer noopener">P72043</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4223172..4223172&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4223172..4223172" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4223172..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4223172..None" target="_blank" rel="noreferrer noopener">4223172</a> </td> <td>C</td> @@ -304,10 +304,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P9WKX1" target="_blank" rel="noreferrer noopener">P9WKX1</a> </td> - <td>snp</td> + <td>True</td> <td>synonymous_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4232327..4232327&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4232327..4232327" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4232327..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4232327..None" target="_blank" rel="noreferrer noopener">4232327</a> </td> <td>G</td> @@ -331,10 +331,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P9WN03" target="_blank" rel="noreferrer noopener">P9WN03</a> </td> - <td>snp</td> + <td>True</td> <td>synonymous_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4238963..4238963&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4238963..4238963" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4238963..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4238963..None" target="_blank" rel="noreferrer noopener">4238963</a> </td> <td>C</td> @@ -363,10 +363,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P9WN03" target="_blank" rel="noreferrer noopener">P9WN03</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4239274..4239274&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4239274..4239274" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4239274..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4239274..None" target="_blank" rel="noreferrer noopener">4239274</a> </td> <td>C</td> @@ -395,10 +395,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P9WNL5" target="_blank" rel="noreferrer noopener">P9WNL5</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4240671..4240671&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4240671..4240671" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4240671..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4240671..None" target="_blank" rel="noreferrer noopener">4240671</a> </td> <td>T</td> @@ -427,10 +427,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P9WNL7" target="_blank" rel="noreferrer noopener">P9WNL7</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4247429..4247429&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4247429..4247429" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4247429..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4247429..None" target="_blank" rel="noreferrer noopener">4247429</a> </td> <td>A</td> @@ -459,10 +459,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=P9WNL7" target="_blank" rel="noreferrer noopener">P9WNL7</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4247646..4247646&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4247646..4247646" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4247646..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4247646..None" target="_blank" rel="noreferrer noopener">4247646</a> </td> <td>C</td> @@ -491,10 +491,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=O53577" target="_blank" rel="noreferrer noopener">O53577</a> </td> - <td>snp</td> + <td>True</td> <td>synonymous_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4251297..4251297&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4251297..4251297" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4251297..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4251297..None" target="_blank" rel="noreferrer noopener">4251297</a> </td> <td>C</td> @@ -517,10 +517,10 @@ <td> <p>NA</p> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4254290..4254290&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4254290..4254290" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4254290..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4254290..None" target="_blank" rel="noreferrer noopener">4254290</a> </td> <td>T</td> @@ -544,10 +544,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=O53578" target="_blank" rel="noreferrer noopener">O53578</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4254478..4254478&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4254478..4254478" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4254478..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4254478..None" target="_blank" rel="noreferrer noopener">4254478</a> </td> <td>G</td> @@ -571,10 +571,10 @@ <a href="https://explorer.sanbi.ac.za/search?q=O53580" target="_blank" rel="noreferrer noopener">O53580</a> </td> - <td>snp</td> + <td>True</td> <td>missense_variant</td> <td> - <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4261499..4261499&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4261499..4261499" + <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4261499..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4261499..None" target="_blank" rel="noreferrer noopener">4261499</a> </td> <td>A</td>