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theiagen · Oct 9, 2024 · f76234c · f76234c
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diff --git a/site/404.html b/site/404.html
diff --git a/site/assets/figures/Core_Gene_SNP.png b/site/assets/figures/Core_Gene_SNP.png
diff --git a/site/assets/figures/Create_Terra_Table_example1.png b/site/assets/figures/Create_Terra_Table_example1.png
diff --git a/site/assets/figures/Create_Terra_Table_example2.png b/site/assets/figures/Create_Terra_Table_example2.png
diff --git a/site/assets/figures/Find_Shared_Variants_PHB.png b/site/assets/figures/Find_Shared_Variants_PHB.png
diff --git a/site/assets/figures/Freyja_FASTQ.png b/site/assets/figures/Freyja_FASTQ.png
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diff --git a/site/assets/figures/Kraken2.png b/site/assets/figures/Kraken2.png
diff --git a/site/assets/figures/Lyve_Set.png b/site/assets/figures/Lyve_Set.png
diff --git a/site/assets/figures/Snippy_Streamline.png b/site/assets/figures/Snippy_Streamline.png
diff --git a/site/assets/figures/Snippy_Streamline_FASTA.png b/site/assets/figures/Snippy_Streamline_FASTA.png
diff --git a/site/assets/figures/Snippy_Variants.png b/site/assets/figures/Snippy_Variants.png
diff --git a/site/assets/figures/TheiaCoV.png b/site/assets/figures/TheiaCoV.png
diff --git a/site/assets/figures/TheiaEuk_Illumina_PE.png b/site/assets/figures/TheiaEuk_Illumina_PE.png
diff --git a/site/assets/figures/TheiaMeta_Illumina_PE.png b/site/assets/figures/TheiaMeta_Illumina_PE.png
diff --git a/site/assets/figures/TheiaProk.png b/site/assets/figures/TheiaProk.png
diff --git a/site/assets/figures/TheiaValidate.png b/site/assets/figures/TheiaValidate.png
diff --git a/site/assets/figures/Workflow_Relationships.png b/site/assets/figures/Workflow_Relationships.png
diff --git a/site/assets/figures/Workflow_Relationships_dark.png b/site/assets/figures/Workflow_Relationships_dark.png
diff --git a/site/assets/figures/basespace_fetch/step1.png b/site/assets/figures/basespace_fetch/step1.png
diff --git a/site/assets/figures/basespace_fetch/step10.png b/site/assets/figures/basespace_fetch/step10.png
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diff --git a/site/assets/figures/basespace_fetch/step9.png b/site/assets/figures/basespace_fetch/step9.png
diff --git a/site/assets/figures/example_krona_report.png b/site/assets/figures/example_krona_report.png
diff --git a/site/assets/figures/example_phandango_coloring.png b/site/assets/figures/example_phandango_coloring.png
diff --git a/site/assets/files/GPSC_README_PopPUNK2.txt b/site/assets/files/GPSC_README_PopPUNK2.txt
diff --git a/site/assets/files/TheiaEuk_qc_check_template.tsv b/site/assets/files/TheiaEuk_qc_check_template.tsv
diff --git a/site/assets/files/TheiaProk_FASTA_qc_check_template.tsv b/site/assets/files/TheiaProk_FASTA_qc_check_template.tsv
diff --git a/site/assets/files/TheiaProk_Illumina_PE_qc_check_template.tsv b/site/assets/files/TheiaProk_Illumina_PE_qc_check_template.tsv
diff --git a/site/assets/files/example_excluded_samples.tsv b/site/assets/files/example_excluded_samples.tsv
diff --git a/site/assets/files/input_jsons/TheiaCoV_FASTA_RSV-A_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_FASTA_RSV-A_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_FASTA_RSV-B_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_FASTA_RSV-B_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_FASTA_WNV_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_FASTA_WNV_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_FASTA_flu_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_FASTA_flu_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_HIV_v1_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_HIV_v1_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_HIV_v2_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_HIV_v2_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_RSV-A_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_RSV-A_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_RSV-B_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_RSV-B_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_WNV_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_WNV_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_flu_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_Illumina_PE_flu_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_Illumina_SE_WNV_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_Illumina_SE_WNV_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_ONT_HIV_v1_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_ONT_HIV_v1_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_ONT_HIV_v2_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_ONT_HIV_v2_2024-04-19.json
diff --git a/site/assets/files/input_jsons/TheiaCoV_ONT_flu_2024-04-19.json b/site/assets/files/input_jsons/TheiaCoV_ONT_flu_2024-04-19.json
diff --git a/site/assets/files/theiavalidate/example_exact_differences.tsv b/site/assets/files/theiavalidate/example_exact_differences.tsv
diff --git a/site/assets/files/theiavalidate/example_summary.pdf b/site/assets/files/theiavalidate/example_summary.pdf
diff --git a/site/assets/files/theiavalidate/example_validation_criteria_differences.tsv b/site/assets/files/theiavalidate/example_validation_criteria_differences.tsv
diff --git a/site/assets/files/theiavalidate/filtered_example_table1.tsv b/site/assets/files/theiavalidate/filtered_example_table1.tsv
diff --git a/site/assets/files/theiavalidate/filtered_example_table2.tsv b/site/assets/files/theiavalidate/filtered_example_table2.tsv
diff --git a/site/assets/files/theiavalidate/theiacov-validation-criteria.txt b/site/assets/files/theiavalidate/theiacov-validation-criteria.txt
diff --git a/site/assets/files/theiavalidate/theiaeuk-validation-criteria.txt b/site/assets/files/theiavalidate/theiaeuk-validation-criteria.txt
diff --git a/site/assets/files/theiavalidate/theiaprok-validation-criteria.txt b/site/assets/files/theiavalidate/theiaprok-validation-criteria.txt
diff --git a/site/assets/images/favicon.png b/site/assets/images/favicon.png
diff --git a/site/assets/javascripts/bundle.56dfad97.min.js b/site/assets/javascripts/bundle.56dfad97.min.js