Issues: nextstrain/augur
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
Author
Label
Projects
Milestones
Assignee
Sort
Issues list
export: Add option to extend the default lat/longs
enhancement
New feature or request
#1465
opened May 16, 2024 by
victorlin
pip/conda dependency version constraints not guaranteed in all environments
bug
Something isn't working
#1463
opened May 15, 2024 by
victorlin
augur align --method nextclade should wrap nextclade run
enhancement
#1462
opened May 15, 2024 by
genehack
Make command line option headings linkable
documentation
Improvements or additions to documentation
#1458
opened May 1, 2024 by
victorlin
Add docs regarding bootstraps
documentation
Improvements or additions to documentation
#1456
opened Apr 29, 2024 by
jameshadfield
Allow custom date column name to be specified in New feature or request
refine - similar to metadata-id-column
enhancement
#1443
opened Apr 2, 2024 by
corneliusroemer
Add schema for node-data JSONs
enhancement
New feature or request
#1441
opened Mar 19, 2024 by
joverlee521
align: error message when reading a reference sequence does not completely explain the root issue
bug
Something isn't working
#1437
opened Mar 14, 2024 by
huddlej
measurements export does not consistently allow the strain column to be used as a grouping column
bug
#1428
opened Mar 5, 2024 by
huddlej
parse silently removes spaces from record ids in the sequence output but not in the metadata output
bug
#1427
opened Mar 4, 2024 by
huddlej
Improve validation output to identify problematic nodes / properties
enhancement
New feature or request
#1426
opened Mar 3, 2024 by
jameshadfield
frequencies: Validate arguments
enhancement
New feature or request
#1414
opened Feb 14, 2024 by
victorlin
[export] Mismatch between default footer filters and Auspice sidebar filters
#1409
opened Feb 8, 2024 by
joverlee521
Add New feature or request
jq to dev dependency
enhancement
#1399
opened Jan 26, 2024 by
joverlee521
[ancestral] error when writing gzipped VCF output
bug
Something isn't working
#1377
opened Dec 26, 2023 by
jameshadfield
Extend New feature or request
augur import with auspice mode that imports from auspice.json
enhancement
#1369
opened Dec 20, 2023 by
corneliusroemer
[ancestral] VCF REF != reference base resulting in missing variation
bug
Something isn't working
#1368
opened Dec 20, 2023 by
jameshadfield
[ancestral] reference seq may be reference or inferred tree root
bug
Something isn't working
priority: low
To be resolved after high and moderate priority issues
#1362
opened Dec 18, 2023 by
jameshadfield
Incompatabilities between augur tree and augur ancestral
bug
Something isn't working
please take this issue
Extra attention is needed
priority: high
To be resolved before other issues
#1360
opened Dec 15, 2023 by
jameshadfield
Augur errors when jsonschema version 4 is installed
bug
Something isn't working
priority: moderate
To be resolved after high priority issues
#1358
opened Dec 13, 2023 by
corneliusroemer
[vcf] replace VCF reading with TreeTime's New feature or request
read_vcf
enhancement
#1357
opened Dec 13, 2023 by
jameshadfield
[vcf] Replace
write_VCF_translation with treetime's write_vcf
#1356
opened Dec 12, 2023 by
jameshadfield
Run CI against blab/veme-2022 and zika-tutorial
enhancement
New feature or request
#1350
opened Dec 5, 2023 by
jameshadfield
refine throws error "TypeError: '<' not supported between instances of 'NoneType' and 'str'"
bug
Something isn't working
#1342
opened Nov 17, 2023 by
corneliusroemer
Previous Next
ProTip!
Find all open issues with in progress development work with linked:pr.