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nextstrain
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zika
Nextstrain build for Zika virus
https://nextstrain.org/zika
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ingest: use new augur curate commands
#68
joverlee521
opened
1 day ago
0
Update description
#67
j23414
closed
2 days ago
0
Use `phylogenetic/bin` to match `ingest/bin`
#66
j23414
opened
3 days ago
1
Adds data provenance attribution
#65
j23414
closed
3 weeks ago
0
Update maintainers to Nextstrain team
#64
j23414
closed
3 weeks ago
0
Rename phylogenetic CI config file to standard name
#63
genehack
closed
1 month ago
3
ENH: Add an E gene tree
#62
j23414
opened
1 month ago
1
add nextstrain-pathogen.yaml [#60]
#61
genehack
closed
1 month ago
0
Add `nextstrain-pathogen.yaml`
#60
genehack
closed
1 month ago
0
Switch AWS credentials from a long-lived IAM user to short-lived role sessions
#59
tsibley
closed
1 month ago
4
ingest: fix csvtk quotes
#58
joverlee521
closed
2 months ago
3
phylogenetic: Use inline root sequence
#57
joverlee521
closed
2 months ago
2
phylogenetic: Add root-sequence.json to rule `all`
#56
joverlee521
closed
2 months ago
3
Add independent ingest and phylogenetic GH Action workflows
#55
joverlee521
closed
2 months ago
7
Fix automation hash
#54
joverlee521
closed
2 months ago
1
Automation cache not working as expected
#53
joverlee521
closed
2 months ago
3
Automate ingest and phylogenetic workflows
#52
joverlee521
closed
3 months ago
3
Add nextstrain-automation build-configs to phylogenetic worklfow
#51
joverlee521
closed
3 months ago
0
Move nextstrain automation rules and configs to ingest/build-configs
#50
j23414
closed
3 months ago
1
Update maintainers
#49
trvrb
closed
3 months ago
0
Move hardcoded parameters to the config file
#48
j23414
closed
3 months ago
1
Update docs to use "defaults" and "build-configs" dirs
#47
j23414
closed
3 months ago
0
ingest: support `custom_rules` from config
#46
joverlee521
closed
4 months ago
0
[readme] rename config/ to default/
#45
jameshadfield
closed
3 months ago
0
Move Nextstrain "automation rules/configs" to "ingest/build-configs"
#44
j23414
closed
3 months ago
0
Rename "profiles" to "build-configs"
#43
j23414
closed
4 months ago
0
ingest: Fix field_map config
#42
joverlee521
closed
4 months ago
0
Fix: Use a consistent country name across usvi samples both submitted to genbank and not yet
#41
j23414
closed
4 months ago
0
Use a consistent "country" name across USVI samples (both submitted to GenBank and not-yet)
#40
j23414
closed
4 months ago
0
Add CHANGELOG
#39
j23414
closed
4 months ago
0
fix: phylo: clean rule removes the USVI data
#38
j23414
closed
4 months ago
0
phylo: `clean` rule removes the USVI data
#37
joverlee521
closed
4 months ago
1
Move accession to the first column of metadata_all.tsv
#36
j23414
closed
4 months ago
0
phylo: Move hardcoded params to config YAML
#35
joverlee521
closed
3 months ago
0
Rename "profiles" to "build-configs"
#34
joverlee521
closed
4 months ago
0
Add CHANGELOG.md
#33
joverlee521
closed
4 months ago
0
Drop accession workaround when nextstrain/augur 1384 is solved
#32
joverlee521
opened
5 months ago
1
Harmonize with pathogen repo guide
#31
j23414
closed
5 months ago
2
Add Quickstart section to the top level README
#30
joverlee521
closed
5 months ago
0
Harmonize with pathogen-repo-guide
#29
j23414
closed
5 months ago
0
Persephone
#28
j23414
closed
5 months ago
0
chore: Nextstrain/styleguide
#27
j23414
closed
1 year ago
3
fix missing https in the links
#26
j23414
closed
1 year ago
0
fix: index by genbank instead of duplicate strain
#25
j23414
closed
1 year ago
0
Ingest
#24
j23414
closed
7 months ago
1
zstd
#23
j23414
closed
1 year ago
0
remove cores flag, no longer needed https://github.com/nextstrain/mea…
#22
j23414
closed
1 year ago
0
feat: add a recency rule
#21
j23414
opened
1 year ago
0
update the ci badge
#20
j23414
closed
2 years ago
0
Specify `--cores all` for `nextstrain build .`
#19
victorlin
closed
2 years ago
1
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