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nextstrain
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dengue
Nextstrain build for dengue virus
https://nextstrain.org/dengue
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Add a CHANGELOG
#31
j23414
closed
4 months ago
0
Establish some deduplication guidelines within the phylogenetic workflow
#30
j23414
opened
5 months ago
1
Exclude circular synthetic (or chimeric) sequences
#29
j23414
closed
4 months ago
1
Removal of genome containing plasmid sequence
#28
Rohit-Satyam
closed
3 months ago
16
ENH: Generalize taxon id to serotype map definitions to a configuration file
#27
j23414
opened
5 months ago
0
Fix: update dropped strains file to list accession instead of strain names
#26
j23414
closed
5 months ago
0
Add workflow for producing the Nextclade dengue dataset
#25
j23414
closed
1 month ago
3
Bug: Update dropped strains file to list accession instead of strain
#24
j23414
closed
5 months ago
5
Modernize `ncbi-field-map` in config
#23
j23414
closed
5 months ago
0
Harmonize with pathogen repo guide
#22
j23414
closed
4 months ago
1
Add workflow for producing the Nextclade dengue dataset
#21
j23414
opened
5 months ago
2
Split by serotype using NCBI virus_tax_id
#20
j23414
closed
5 months ago
0
Split by dengue serotype (denv1-denv4)
#19
j23414
closed
4 months ago
1
Add E gene trees
#18
j23414
closed
2 months ago
6
Add E gene builds
#17
j23414
closed
2 months ago
5
Nextclade assignment
#16
j23414
closed
5 months ago
3
A tiny change: use a phylogenetic directory
#15
j23414
closed
6 months ago
1
Ignore snakemake state dir for current and subfolders
#14
j23414
closed
9 months ago
0
Copy ingest
#13
j23414
closed
7 months ago
1
Use "accession" column as ID column
#12
j23414
closed
9 months ago
2
[feat] Add the DENV2/AII clade
#11
j23414
closed
11 months ago
0
New ingest one snakefile
#10
j23414
closed
2 months ago
1
chore: Nextstrain/styleguide
#9
j23414
closed
1 year ago
1
[wip] Do Not Merge - Pull correct reference titles
#8
j23414
closed
8 months ago
1
docs: drop obsolete fauna instructions
#7
j23414
closed
1 year ago
0
Generalize Ingest
#6
j23414
closed
2 months ago
5
add: s3 input
#5
j23414
closed
1 year ago
0
Update dropped strains
#4
j23414
closed
1 year ago
0
Migrate CI to GitHub Actions
#3
j23414
closed
2 years ago
0
CI: Upgrade setuptools suite prior to installation
#2
huddlej
closed
2 years ago
0
Export v2
#1
trvrb
closed
4 years ago
0
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