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nextstrain
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measles
Nextstrain build for measles virus
https://nextstrain.org/measles
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ingest: use new augur curate commands
#44
joverlee521
opened
12 hours ago
0
Trim reuse text
#43
victorlin
closed
2 days ago
0
Include frequencies for N450 build
#42
trvrb
closed
13 hours ago
2
Pad out page footer
#41
kimandrews
closed
5 days ago
2
Clade assignment using whole genome - reference tree inconsistency with reference fasta file
#40
mariaelf97
closed
1 week ago
4
Update titles for live builds
#39
kimandrews
closed
3 weeks ago
1
Fixup: Add date annotations for rare genotypes
#38
kimandrews
opened
3 weeks ago
0
Pad out page footer and update byline
#37
trvrb
closed
3 days ago
1
Assign genotypes using Nextclade dataset and visualize on tree
#36
kimandrews
closed
3 weeks ago
1
Switch AWS credentials from a long-lived IAM user to short-lived role sessions
#35
tsibley
closed
1 month ago
0
Fixup: Remove time information from Nextclade dataset tree
#34
kimandrews
closed
3 weeks ago
0
Remove time information from Nextclade dataset tree
#33
kimandrews
closed
1 month ago
0
Call measles genotypes during ingest and display on tree
#32
trvrb
closed
3 days ago
2
Package the Nextclade dataset
#31
kimandrews
opened
2 months ago
0
Fixup: Add ambiguous month and day to date annotations
#30
kimandrews
closed
1 month ago
0
Line endings are CRLF
#29
jameshadfield
opened
2 months ago
0
Make nextclade tree
#28
kimandrews
closed
1 month ago
4
fixup: use include file in `augur filter`
#27
kimandrews
closed
2 months ago
0
Include WHO reference strains, vaccine strains, NCBI genotypes in trees
#26
kimandrews
closed
2 months ago
0
phylogenetic: Use inline root sequence
#25
joverlee521
closed
2 months ago
3
Primary key shouldn't include version number in GenBank accession
#24
trvrb
closed
2 months ago
0
Include vaccine strains
#23
trvrb
closed
2 months ago
0
Automate ingest and phylogenetic workflows
#22
kimandrews
closed
2 months ago
1
Add nextstrain-automation build-configs to phylogenetic workflow
#21
kimandrews
closed
3 months ago
0
Make tree for 450bp of the N gene ("N450")
#20
kimandrews
closed
3 months ago
0
Connect ingest and phylogenetic workflows to follow pathogen-repo-guide
#19
kimandrews
closed
3 months ago
0
Add phylogenetic directory
#18
kimandrews
closed
4 months ago
0
ingest: Move intermediate file to `data` directory
#17
kimandrews
closed
4 months ago
0
Parse genotype from NCBI data
#16
kimandrews
closed
2 months ago
2
Update top-level .gitignore
#15
kimandrews
closed
4 months ago
0
Create custom code to parse Measles strain names
#14
kimandrews
opened
4 months ago
0
Consider building gene-specific phylogenies
#13
kimandrews
closed
2 months ago
1
Consider a human-host-specific workflow
#12
kimandrews
opened
5 months ago
0
Use accession number in phylogenetic workflow
#11
kimandrews
closed
2 months ago
1
Add ingest
#10
kimandrews
closed
4 months ago
1
Use a config file to define hardcoded parameters
#9
kimandrews
closed
5 months ago
0
chore: Nextstrain/styleguide
#8
j23414
closed
1 year ago
1
zstd
#7
j23414
closed
1 year ago
0
[do not merge] add cores flag
#6
j23414
closed
1 year ago
3
Migrate CI to GitHub Actions
#5
tsibley
closed
2 years ago
0
GitHub actions CI
#4
j23414
closed
2 years ago
1
pull data from https instead of fauna
#3
j23414
closed
2 years ago
2
CI: Upgrade setuptools suite prior to installation
#2
huddlej
closed
2 years ago
0
Export v2
#1
trvrb
closed
4 years ago
0