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Include external tools in the Nextstrain Snakemake workflow
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3
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19
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February 6, 2026
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How to get the correct time axis when using augur refine and timetree?
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4
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27
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February 4, 2026
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Nextclade short clade annotation H1N1
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1
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18
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January 15, 2026
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How to set up next strain
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2
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14
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January 8, 2026
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How can one identify host-adaptive/associated mutations from a tree?
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0
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42
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May 25, 2025
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How to map SARS-COV-2 Clades to WHO name?
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1
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40
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March 15, 2025
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Annotation error for aa translation
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2
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55
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February 3, 2025
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Aligned nucleotide sequence does not match the CDS translation
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1
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63
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January 9, 2025
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Frequency map problem
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2
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47
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December 20, 2024
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`nextclade sort` Using a serverless local dataset for sorting
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2
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78
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November 20, 2024
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Iqtree error: Tree taxa and alignment sequence do not match
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10
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398
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November 6, 2024
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Reduce number of references in RSV phylogenetic tree - Nextclade CLI
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1
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54
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September 9, 2024
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Methods to automate the list of pangos for augur filter?
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8
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139
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August 27, 2024
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Question about upload protocol for remote upload
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1
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49
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August 20, 2024
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Titer measurement formats and conversion to csv for nextflu
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3
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58
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July 30, 2024
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How to change the reference sequence?
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2
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61
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July 18, 2024
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Lost the tip names (labels)
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2
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66
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July 11, 2024
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Reference tree for RSV used in NextClade webstie
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3
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245
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June 19, 2024
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How can I know the Nextclade_pango for each of SC2 sequences?
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4
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1038
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June 15, 2024
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Question about mafft alignment using a reference sequence
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2
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353
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June 14, 2024
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Selection of RSV reference sequences
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2
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256
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May 23, 2024
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Problems for the SARS-CoV-2 Workflow
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1
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438
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May 19, 2023
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Inferring pathogen.json from a nextclade.tsv results
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0
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155
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April 16, 2024
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When Nextclade CLI calls clades but Nextclade Web does not
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0
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156
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April 16, 2024
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IQTREE error: Some sequences (see above) are problematic, please check your alignment again
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3
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925
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April 11, 2024
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Can't open this page!
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1
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166
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March 12, 2024
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List of clade-like attributes for each organism
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2
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167
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March 9, 2024
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Unable to view zika tutorial
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8
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325
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January 25, 2024
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CLI link broken from clades.nextstrain.org
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3
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274
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January 24, 2024
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Displaying trees from NCBI Pathogen Browser in auspice.us
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9
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580
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January 18, 2024
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