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TRON-Bioinformatics
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covigator
CoVigator - Monitoring SARS-CoV-2 mutations
MIT License
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use lineages metadata to enrich the lineages plot in the dashboard
#102
johausmann
closed
1 year ago
0
61 annotate lineages with names
#101
johausmann
closed
1 year ago
3
Data download returns 404 for low_frequency_variant_observation and lq_clonal_variant_observation
#100
priesgo
closed
1 year ago
3
Bump werkzeug from 2.0.1 to 2.2.3
#99
dependabot[bot]
closed
8 months ago
1
Release 2.1.0
#98
johausmann
closed
1 year ago
1
Bump ipython from 7.31.1 to 8.10.0 in /docs
#97
dependabot[bot]
closed
8 months ago
2
add feedback form from user report
#96
priesgo
closed
1 year ago
0
Updated hover tooltips in lineages plot
#95
johausmann
closed
1 year ago
1
Add table in home with features in each dataset
#94
priesgo
closed
6 months ago
0
Search optimization of CoVigator dashboard with keywords
#93
priesgo
closed
9 months ago
1
In the intrahost tab the selection of mutations to expand details requires clicking apply and running expensive queries again, this could be seperated to an independent buttom "view details"
#92
priesgo
opened
1 year ago
0
Fix codacy issues
#91
priesgo
closed
1 year ago
1
Release v2.0.0
#90
priesgo
closed
1 year ago
1
The date box on the top right of the page is overlapped by the tabs in small screens
#89
priesgo
closed
10 months ago
2
Update docs
#88
priesgo
closed
1 year ago
0
Update sql queries and extend mutation color palette
#87
johausmann
closed
1 year ago
1
Add exclusion criteria for sample without collection date
#86
priesgo
opened
1 year ago
1
Add some teaser info on each tab
#85
priesgo
closed
1 year ago
0
Rollback session after error
#84
priesgo
closed
1 year ago
1
Update screenshots
#83
priesgo
closed
1 year ago
1
Harmonize colors of mutations in legends in mutation stats tab
#82
priesgo
closed
1 year ago
0
fix codacy style issues
#81
priesgo
closed
1 year ago
1
Change VAF range in intrahost tab to include VAFs below 10 %
#80
priesgo
closed
1 year ago
0
57 filter hq intrahost
#79
priesgo
closed
1 year ago
1
Some patches to the DB + a bugfix on a date
#78
priesgo
closed
1 year ago
1
Introduce low quality clonal mutations
#77
priesgo
closed
1 year ago
2
75 too high freqs
#76
priesgo
closed
1 year ago
2
Some monthly frequencies are slightly above 1.0 in table precomputed_top_occurrence
#75
priesgo
closed
1 year ago
0
Capture feedback from the dashboard
#74
priesgo
closed
1 year ago
1
Avoid possible SQL injections by using placeholders
#73
priesgo
closed
1 year ago
0
Bump numpy from 1.21.0 to 1.22.0
#72
dependabot[bot]
closed
1 year ago
4
Bump ipython from 7.27.0 to 7.31.1 in /docs
#71
dependabot[bot]
closed
1 year ago
0
TEST DO NOT MERGE: Code coverage
#70
priesgo
closed
1 year ago
0
Code coverage
#69
priesgo
closed
1 year ago
1
Hover tooltips in lineages plot are difficult to use
#68
priesgo
closed
1 year ago
1
Search bar for lineages
#67
priesgo
closed
6 months ago
1
Implement content of the dashboard
#66
priesgo
closed
6 months ago
0
Link to the lineage summary (eg: https://covigator.tron-mainz.de/lineages/B.1.1.7) from the lineages tab of other dashboards
#65
priesgo
closed
6 months ago
0
Implement a simplistic lineage selection with a dropdown box that opens the page of the selected lineage
#64
priesgo
closed
6 months ago
0
Implement a separate dashboard (ie: https://covigator.tron-mainz.de/lineages) accessible from the landing page
#63
priesgo
closed
6 months ago
0
Annotate lineages with described mutations
#62
priesgo
closed
1 year ago
3
Annotate lineages with names (eg: Delta)
#61
priesgo
closed
1 year ago
1
Prepare proposal of plots and information to show (slide-based)
#60
priesgo
closed
6 months ago
1
Lineage summary dashboard
#59
priesgo
closed
6 months ago
0
54 smooth lineages plot
#58
priesgo
closed
1 year ago
0
Implement the intrahost mutations filter on dashboard
#57
priesgo
closed
1 year ago
0
Change threshold for low frequency mutations to 2 % and store mutations >= 50 % and < 80 % in different table
#56
priesgo
closed
1 year ago
0
Frequencies are not segregated by months in the recurrent mutations table
#55
priesgo
closed
1 year ago
0
Smooth the lineages plot
#54
priesgo
closed
1 year ago
0
Monster PR
#53
priesgo
closed
1 year ago
0
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