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jeromekelleher
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sc2ts-paper
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Tackle False positives
#155
jeromekelleher
closed
1 year ago
1
Authors and other stuff
#154
jeromekelleher
closed
1 year ago
0
Migrate s4.7 notebooks to sc2ts repo
#153
jeromekelleher
opened
1 year ago
0
Use pypi package
#152
jeromekelleher
closed
1 year ago
0
Move nextstrain.py to paper repo
#151
jeromekelleher
closed
1 year ago
1
Keep original file to generate PDF of sc2ts overview
#150
szhan
closed
1 year ago
0
Update Pango-recombinant-analysis.ipynb
#149
hyanwong
closed
1 year ago
2
Add a cophylogeny notebook
#148
hyanwong
closed
1 year ago
0
Add numbers quoted in Pango X lineage intro section to notebook
#147
jeromekelleher
closed
1 year ago
1
Tidy up intro to X lineages bit
#146
jeromekelleher
closed
1 year ago
0
Results pass3
#145
jeromekelleher
closed
1 year ago
0
Add modified schematic overview of sc2ts procedure
#144
szhan
closed
1 year ago
1
Results pass
#143
jeromekelleher
closed
1 year ago
0
Checklist before publishing: scan for FIXMEs
#142
jeromekelleher
closed
1 year ago
3
Checklist before publishing: turn on URLs
#141
jeromekelleher
closed
1 year ago
0
Tweak some labels and positions
#140
hyanwong
closed
1 year ago
0
Update jackson table
#139
jeromekelleher
closed
1 year ago
0
Fix 3seq coords
#138
jeromekelleher
closed
1 year ago
0
Tidyup pass through bib
#137
jeromekelleher
closed
1 year ago
0
Fig S3 caption out of date
#136
jeromekelleher
closed
1 year ago
1
Fig S1 missing dates
#135
jeromekelleher
closed
1 year ago
1
full pass through methods
#134
jeromekelleher
closed
1 year ago
0
Methods pass2
#133
jeromekelleher
closed
1 year ago
0
Methods pass
#132
jeromekelleher
closed
1 year ago
0
Tweaks for method overview figure
#131
jeromekelleher
closed
1 year ago
31
Truncate interval hist at 10kb
#130
jeromekelleher
closed
1 year ago
2
Interval inset histograms
#129
hyanwong
closed
1 year ago
2
Tidy up intro to xlins
#128
jeromekelleher
closed
1 year ago
0
Discussion2
#127
jeromekelleher
closed
1 year ago
0
Update plots to new tree sequence versions (with interval metadata) & change MRCA plots
#126
hyanwong
closed
1 year ago
0
First pass at the discussion
#125
jeromekelleher
closed
1 year ago
0
Intro3
#124
jeromekelleher
closed
1 year ago
0
Intro2
#123
jeromekelleher
closed
1 year ago
0
First pass at abstract, some initial stuff on intro
#122
jeromekelleher
closed
1 year ago
0
Pass through recombination parents section
#121
jeromekelleher
closed
1 year ago
0
Missing code for RecombinationNodeMrcas figures
#120
jeromekelleher
closed
1 year ago
13
More intervals
#119
jeromekelleher
closed
1 year ago
0
Back to intervals section
#118
jeromekelleher
closed
1 year ago
0
Update Jackson et al breakpoints for sc2ts
#117
jeromekelleher
closed
1 year ago
0
Pango recombinant notebook slightly wrong
#116
hyanwong
closed
1 year ago
0
Use XA to see if we get parallel recombination events due to undersampling
#115
hyanwong
opened
1 year ago
0
Update interval analyses
#114
jeromekelleher
closed
1 year ago
0
Some text on breakpoints
#113
jeromekelleher
closed
1 year ago
0
Good draft of Jackson recombs
#112
jeromekelleher
closed
1 year ago
0
Add interval to cophylo plots
#111
hyanwong
closed
1 year ago
0
Good draft of mutation spectra section
#110
jeromekelleher
closed
1 year ago
0
Finish breakpoint intervals figure
#109
jeromekelleher
closed
1 year ago
0
Smallerify figure
#108
jeromekelleher
closed
1 year ago
0
Xe breakpoints tables
#107
jeromekelleher
closed
1 year ago
0
Editing imputation section and figure
#106
a-ignatieva
closed
1 year ago
0
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