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seattleflu
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augur-build
the (in development) augur build for understanding influenza dynamics in Seattle
https://seattleflu.org
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download_sfs_metadata: update to v3
#34
joverlee521
closed
3 years ago
1
Fix hidden node annotation script for v2 JSONs
#33
jameshadfield
closed
4 years ago
1
Clean up incoming ID3C data
#32
trvrb
opened
4 years ago
11
Download SFS metadata and sequences from ID3C
#31
joverlee521
closed
4 years ago
2
Coloring scipts
#30
miparedes
closed
5 years ago
1
Pairwise comparisons based on categorical label
#29
miparedes
closed
4 years ago
0
Produces figures of introductions into Seattle.
#28
cassiawag
closed
5 years ago
1
Reproducible Coloring based on Location Label
#27
miparedes
closed
5 years ago
1
Adds plot_gen_geo_distance.py
#26
cassiawag
closed
5 years ago
1
Finding Genetic Distance to Closest Sample
#25
miparedes
closed
5 years ago
5
Adds script to plot genetic vs. geo distance
#24
cassiawag
closed
5 years ago
5
Updates feature>source for reference genbank files
#23
cassiawag
closed
5 years ago
1
Optional Filtering-to-region
#22
miparedes
closed
5 years ago
2
Calculate genetic distance to closest sample
#21
trvrb
closed
5 years ago
1
Compare genetic distance to geographic distance
#20
trvrb
closed
5 years ago
0
Include script to hide ancestral nodes based on cluster designation
#19
trvrb
closed
5 years ago
4
Make filter-to-region optional in extract_cluster_fastas.py
#18
trvrb
closed
5 years ago
1
Create reproducible coloring for census tracts
#17
trvrb
opened
5 years ago
0
Nucleotide length in reference .gb file
#16
trvrb
closed
5 years ago
3
Adds rules for aggregated trees to Snakefile.
#15
cassiawag
closed
5 years ago
1
Updates header for reference genbank file.
#14
cassiawag
closed
5 years ago
2
Updated H3N2 reference to A/Perth/16/2009.
#13
cassiawag
closed
5 years ago
4
Filtering-to-seattle
#12
miparedes
closed
5 years ago
2
Updated name, description, id in reference genome.
#11
cassiawag
closed
5 years ago
0
Swap out reference for a more recent virus
#10
trvrb
opened
5 years ago
3
Missing header information in genome reference
#9
trvrb
closed
5 years ago
1
Renames clusters starting with 0.
#8
cassiawag
closed
5 years ago
1
Creates reference full-genome genbank file.
#7
cassiawag
closed
5 years ago
1
Creates a reference full-genome genbank file.
#6
cassiawag
closed
5 years ago
0
Genome reference
#5
trvrb
closed
5 years ago
0
Min size
#4
cassiawag
closed
5 years ago
2
Filter cluster output
#3
trvrb
closed
5 years ago
5
Genome_clusters
#2
cassiawag
closed
5 years ago
0
genomes-clusters
#1
cassiawag
closed
5 years ago
1