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bacpop
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PopPUNK
PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)
https://www.bacpop.org/poppunk
Apache License 2.0
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Move call of sketchlibAssemblyQC in query assign
#317
absternator
closed
1 week ago
0
distance calculations hang forever
#316
rderelle
closed
1 week ago
7
Update cluster assign to write qcreport on qc failiures
#315
absternator
closed
1 week ago
0
Versions of input databases sketches are different and the network file choice for Cytoscape visualization
#314
RuwiniK
closed
3 days ago
6
poppunk_visualise unable to find sequence in clustering
#313
fgonzalez3
closed
1 month ago
2
Update from master branch
#312
nickjcroucher
closed
1 month ago
0
issues with assigning GPSCs
#311
johnlees
opened
1 month ago
4
Input reference list is misformatted
#310
SeqBioUCC
opened
2 months ago
10
Cytoscape includes strains from the entire database even with the --include-files option
#309
sydelstan
opened
2 months ago
5
Unable to create the group "/sketches/": (Links) Object already exists
#308
danielarothschild
closed
3 months ago
2
Output external clusterings with visualisations
#307
nickjcroucher
closed
4 months ago
2
Update viz fix
#306
nickjcroucher
closed
4 months ago
0
Avoid overwriting external clustering in visualise script
#305
nickjcroucher
closed
4 months ago
1
Update plotting and network summary statistics
#304
nickjcroucher
opened
4 months ago
0
Update graph summary processes
#303
nickjcroucher
closed
4 months ago
0
Updates to DBSCAN fitting
#302
nickjcroucher
closed
4 months ago
7
Improvements to DBSCAN fitting
#301
nickjcroucher
closed
5 months ago
0
Listeria monocytogenes database is missing graph file.
#300
DOH-JDJ0303
closed
4 months ago
7
Issue with a large Pseudomonas dataset
#299
RyanCFink
opened
6 months ago
4
Poppunk assign fix
#298
samhorsfield96
closed
7 months ago
0
Add permissions again
#297
johnlees
closed
7 months ago
0
Remove permissions and add CNAME
#296
johnlees
closed
7 months ago
0
Use gha to publish docs
#295
johnlees
closed
7 months ago
0
Rename docs action
#294
johnlees
closed
7 months ago
0
Add actions for docs build
#293
johnlees
closed
7 months ago
0
Add the roadmap to the docs
#292
johnlees
closed
7 months ago
0
Update readthedocs config file to v2
#291
johnlees
closed
7 months ago
0
Update assign.py
#290
samhorsfield96
closed
7 months ago
0
Zero Accessory Distances and Varied Core Distances in PopPUNK Fit Graph Analysis
#289
RyanCFink
opened
7 months ago
8
Update from master
#288
nickjcroucher
closed
8 months ago
0
Enhancement: Assigning multiple GPSC types to mixed (meta-genome) samples
#287
sreerampeela
opened
8 months ago
2
Remove deprecated system packages from readthedocs build
#286
johnlees
closed
9 months ago
1
API change in mpl380 ellipses
#285
johnlees
closed
9 months ago
0
Generating jaccard distances per kmer
#284
JLC2141
closed
9 months ago
3
PackagesNotFoundError
#283
RoyUnderwoodAbramski
closed
10 months ago
2
Fix overwrite, correct error messages
#282
HarryHung
closed
10 months ago
0
What to expect for a sample that may have a mixture of two or more strains
#281
ilyavs
closed
10 months ago
2
extract genome assemblies from database
#280
reaset41
closed
10 months ago
1
Allow overwrite if forced
#279
johnlees
closed
9 months ago
5
Sketchlib back end not available?
#278
hayleyjaywilson
opened
12 months ago
8
ImportError: dlopen: cannot load any more object with static TLS
#277
davidtong28
opened
12 months ago
4
Update H. flu database to new sklearn version
#276
conmeehan
opened
12 months ago
2
Add tutorial to documentation
#275
johnlees
opened
1 year ago
0
Improve manual installation instruction
#274
HarryHung
closed
1 year ago
0
IndexError: list index out of range (running current `master` branch) when running `poppunk_assign`
#273
HarryHung
closed
7 months ago
25
Update CI to new mamba action
#272
johnlees
closed
1 year ago
0
Update Git Repository link
#271
HarryHung
closed
1 year ago
0
bacpop-133 Add pycairo dependency
#270
EmmaLRussell
closed
5 months ago
1
databases: reference only vs all genomes
#269
sapuizait
closed
7 months ago
1
Incorrect merge reporting from novel queries step
#268
johnlees
closed
1 year ago
1
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