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2 changes: 1 addition & 1 deletion tools/artic/artic_minion.xml
Original file line number Diff line number Diff line change
Expand Up @@ -416,7 +416,7 @@ For majority of users the default parameter values will result in a good consens
- normalise: Increase this value to include more reads in the consensus generation step. This is per amplicon per strand, a value of a 100 would equate to an effective depth of 200.
- primer match threshold: When matching a read to a primer site, the pipeline allows for some deviation from the primer location. This value represents the max nucleotide distance between primer site and alignment position.

.. _MPXV protocol: https://artic.network/mpxv/mpxv-bioinformatics-sop.html
.. _MPXV protocol: https://artic.network/fieldbioinformatics/fieldbioinformatics-sop.html
.. _clair3: https://github.com/HKU-BAL/Clair3
.. _Rerio: https://github.com/nanoporetech/rerio
.. _can read here: https://raw.githubusercontent.com/nanoporetech/rerio/refs/heads/master/LICENCE.txt
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4 changes: 2 additions & 2 deletions tools/artic/tool_data_table_conf.xml.sample
Original file line number Diff line number Diff line change
Expand Up @@ -10,8 +10,8 @@
<columns>value, dbkey, name, path</columns>
<file path="tool-data/all_fasta.loc" />
</table>
<table name="model" comment_char="#">
<table name="clair3_models" comment_char="#">
<columns>value, platform, sha256, path, source</columns>
<file path="tool-data/model.loc" />
<file path="tool-data/clair3_models.loc" />
</table>
</tables>
2 changes: 1 addition & 1 deletion tools/artic/tool_data_table_conf.xml.test
Original file line number Diff line number Diff line change
Expand Up @@ -9,7 +9,7 @@
<columns>value, dbkey, name, path</columns>
<file path="${__HERE__}/test-data/all_fasta.loc" />
</table>
<table name="model" comment_char="#">
<table name="clair3_models" comment_char="#">
<columns>value, platform, sha256, path, source</columns>
<file path="${__HERE__}/test-data/clair3_models.loc" />
</table>
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