Help and Getting Started

Topic	Replies	Views	Activity
About the Help and Getting Started category Whether you’re just getting started or a seasoned expert, this is the place to troubleshoot problems, debug workflows, and puzzle over analyses. If you need or can offer help with Nextstrain, make a new topic in this cat…	2	926	June 19, 2020
Trouble with SARS_CoV_2	35	64	February 7, 2025
Where can I look up clade defining mutations for seasonal flu?	1	431	February 4, 2025
Is it possible to display the "Second Tree" dropdown menu in a Nextstrain group?	2	12	January 30, 2025
Nextclade CLI error - Alignment matrix size exceeds maximum value	2	22	January 14, 2025
Displaying a Map in Auspice	5	431	January 5, 2025
New version rule align error	2	21	December 29, 2024
I want to make a phylogenetic tree using augur and auspice pipeline that analyzes the transmission of SARS-CoV-2 from the global context into the Philippines	0	17	December 28, 2024
Timing of nightly build	2	20	December 24, 2024
Problems with coordinate binding	2	18	November 23, 2024
Nextstrain files/datasets in Google Cloud (GCP)?	3	25	November 22, 2024
Load json fails when change dataset on nextstrain	1	12	November 20, 2024
Error: Alignment must have at least 3 sequences	9	1010	November 7, 2024
RSV-A lineage reference sequences have discordant clade assignments	3	41	October 27, 2024
Nextclade set of possible lineages or distance metric	2	29	October 6, 2024
Are gaps due to true insertions ok to leave in the alignment?	1	40	August 20, 2024
View in NextClade Feature	0	19	September 20, 2024
Tree shows an X at the end of branches... what do they mean?	2	55	July 22, 2024
Difference between sequence samples based on Dataset	1	25	September 16, 2024
Mpox Sequence Changes from Root	2	51	September 5, 2024
"Could not determine delimiter" error with metadata files	5	97	August 28, 2024
Influenza vaccine selection dates	1	23	August 15, 2024
Download and rename all builds from nextstrain.org/groups	5	32	August 1, 2024
Confirming presence of amino acid that matches the reference sequence	0	23	July 30, 2024
Mpox: nextstrain issue	2	47	July 20, 2024
Measles root sequence	1	16	July 19, 2024
Geography: will augur recognize correct region if the correct country is provided?	1	22	July 13, 2024
Samples have missing collection date and country info	2	156	July 10, 2024
S3 or URL links for workflow data	6	85	July 3, 2024
Ingest workflow: NCBI Datasets, Entrez, or something else?	1	81	June 28, 2024

About the Help and Getting Started category

Whether you’re just getting started or a seasoned expert, this is the place to troubleshoot problems, debug workflows, and puzzle over analyses. If you need or can offer help with Nextstrain, make a new topic in this cat…