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71 Open 62 Closed
71 Open 62 Closed
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Issues list

Add TreeInfo tool to report on retrospective matches
#296 opened Sep 24, 2024 by jeromekelleher
Add CLI tool to compare number of samples for each pango lineage in metadata DB vs ARG
#295 opened Sep 24, 2024 by jeromekelleher
Improve retrospective group adding logs and top-level info
#293 opened Sep 23, 2024 by jeromekelleher
Add NODE_IS_RETROSPECTIVE_GROUP flag
#291 opened Sep 22, 2024 by jeromekelleher
Add data on major clades for QC
#290 opened Sep 22, 2024 by jeromekelleher
8
Progress labels not set for recombinant matching
#287 opened Sep 19, 2024 by jeromekelleher
No "match_info" field when calling combine_recombinant_info
#285 opened Sep 19, 2024 by hyanwong
5
Fix and test TreeInfo
#271 opened Sep 13, 2024 by jeromekelleher
Bug in mirrored matching bug Something isn't working
#261 opened Sep 7, 2024 by jeromekelleher
Identify lowest normalised HMM likelihood value given MMR
#242 opened Aug 27, 2024 by szhan
25
Examine distribution of max HMM cost per sample in MatchDB
#241 opened Aug 27, 2024 by szhan
2
Update problematic sites for viridian data
#231 opened Aug 5, 2024 by jeromekelleher
2
Introduce optional missingness filter
#230 opened Aug 5, 2024 by jeromekelleher
13
Max mutation parents outlier in Viridian data
#228 opened Aug 5, 2024 by jeromekelleher
9
Add sample-date reporting tool to CLI
#227 opened Aug 4, 2024 by jeromekelleher
Logging: remove pid and log section from output
#226 opened Aug 4, 2024 by jeromekelleher
Logging: more descriptive for sample ID stuff
#222 opened Aug 2, 2024 by jeromekelleher
Logging: put date first in MatchDB output
#220 opened Aug 2, 2024 by jeromekelleher
Logging: report number of passing groups
#219 opened Aug 2, 2024 by jeromekelleher
tszip daily tree output
#213 opened Jul 31, 2024 by jeromekelleher
Filtering out samples in Viridian v0.4 dataset
#204 opened Jul 29, 2024 by szhan
9
Update for tsinfer version 0.4
#201 opened Jul 29, 2024 by jeromekelleher
Log the number of excluded samples, reconsidered samples, and added-back samples
#199 opened Jul 25, 2024 by szhan
1
4
Reconsidering filtered samples from the past N consecutive days
#193 opened Jul 20, 2024 by szhan
32
Identify sensible max HMM cost thresholds
#188 opened Jul 2, 2024 by szhan
8
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