reconhub outbreaker2 issues

reconhub / outbreaker2

Disease outbreak reconstruction from epidemiological and genetic data

http://www.repidemicsconsortium.org/outbreaker2/

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issues

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Update README.md genetic likelihood from Campbell 2019

#90 CyGei opened 5 days ago
0
Contact likelihood affected by contact directionality

#89 CyGei opened 1 month ago
1
Variable contact number (R0) across study period

#88 s223102 closed 10 months ago
1
Equation for corrected genetic likelihood in README

#87 javierps opened 1 year ago
0
santize w_dens

#86 CyGei opened 2 years ago
0
Clean docs and README making use of new GitHub math support

#85 pitmonticone closed 2 years ago
2
Update outbreaker_chains_methods.R

#84 medewitt closed 2 years ago
2
Deprecation Notice in ggplot2 syntax

#83 medewitt closed 2 years ago
0
warning provided for non-integer dates

#82 finlaycampbell closed 2 years ago
0
outbreaker_data dates as.numeric

#81 CyGei closed 2 years ago
1
fix documentation of create_config()

#80 thibautjombart opened 3 years ago
0
Error message when drawing network plot

#79 r0sies opened 3 years ago
1
Allow indices to be passed into custom likelihood functions.

#78 kreldjarn closed 3 years ago
2
Allow negative serial intervals in can_be_ances

#77 finlaycampbell closed 3 years ago
0
Shuffle indices in cpp_move_swap_cases()

#76 kreldjarn closed 3 years ago
1
labels argument not working in plot.outbreaker_chains

#75 pcdjohnson closed 4 years ago
2
Render latex equations in README using github

#74 maxibor closed 4 years ago
2
Change network figure settings for publication

#73 r0sies closed 4 years ago
1
V 1 1 1

#72 finlaycampbell closed 4 years ago
1
Interhosp

#71 PascalCrepey closed 5 years ago
1
- add group variable to display to multiple parameters in the same plot

#70 PascalCrepey closed 5 years ago
1
- add group display to plots

#69 PascalCrepey closed 5 years ago
1
Interhosp

#68 PascalCrepey closed 5 years ago
0
- minor fixes (so that it compiles)

#67 PascalCrepey closed 5 years ago
1
Interhosp

#66 PascalCrepey closed 5 years ago
1
Interhosp

#65 PascalCrepey closed 5 years ago
2
interhosp to do

#64 finlaycampbell opened 5 years ago
5
Interhosp

#63 PascalCrepey closed 5 years ago
0
added potential colonised function to overall likelihood function

#62 mirjamlaager closed 5 years ago
0
Added check for n_cases

#61 ClementMassonnaud closed 5 years ago
0
Interhosp

#60 ClementMassonnaud closed 5 years ago
0
Interhosp

#59 PascalCrepey closed 5 years ago
0
added likelihood contribution of potential colonised

#58 mirjamlaager closed 5 years ago
0
added move and prior for transfer probability sigma

#57 mirjamlaager closed 5 years ago
0
add RNGversion to tests

#56 zkamvar closed 5 years ago
2
Tests failing on R 3.6

#55 zkamvar closed 5 years ago
0
Updated genetic likelihood and kappa tests

#54 finlaycampbell closed 5 years ago
0
fix new_kappa allocation

#53 alxsrobert closed 5 years ago
2
Flexible modeling using distance matrix and custom kernel

#52 sammysheep closed 2 years ago
0
Build failing

#51 finlaycampbell closed 6 years ago
0
Precision fix

#50 gtonkinhill closed 6 years ago
8
documentation plot.outbreaker_chains

#49 clchampag closed 6 years ago
1
Broken link on web page

#48 dushoff closed 6 years ago
1
Converging to lower log-post with time only

#47 thibautjombart closed 6 years ago
3
Give a class to summaries of outbreaker_chains

#46 thibautjombart opened 6 years ago
0
use case labels in plots of `outbreaker_chains` objects

#45 thibautjombart closed 5 years ago
1
outbreaker2 inputs: accept epicontacts

#44 thibautjombart closed 5 years ago
1
outbreaker2 contacts input: accept labels

#43 thibautjombart closed 5 years ago
1
seqTrack initialisation fails with partial dna sampling

#42 finlaycampbell closed 6 years ago
2
Ancestry plot update + checks for DNA labels

#41 finlaycampbell closed 6 years ago
3