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ropensci
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beautier
R package to generate the same BEAST2 XML parameter files as generated by BEAUti 2
https://docs.ropensci.org/beautier
GNU General Public License v3.0
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Update NEWS.md to use h1
#143
olivroy
closed
2 months ago
1
Fix https://github.com/ropensci/babette/issues/106
#142
richelbilderbeek
closed
2 months ago
1
Remove testthat from R/
#141
olivroy
closed
10 months ago
2
Pass R CMD CHECK
#140
olivroy
closed
10 months ago
2
Add `rate_scaler_factor` to have `scaleFactor` in XML
#139
richelbilderbeek
closed
1 year ago
1
Bug report: clock rate cannot be set to follow a normal distribution
#138
richelbilderbeek
closed
12 months ago
5
Resulting xml cannot estimate clock rate in a lognormal distribution prior
#137
richelbilderbeek
closed
1 year ago
3
kappa in HKY site model must be a param
#136
richelbilderbeek
closed
1 year ago
0
Resulting xml cannot estimate clock rate in a uniform distribution prior
#135
pedrotaucce
closed
1 year ago
10
Incompatibility between BEAST 2.7 and babette
#134
richelbilderbeek
opened
1 year ago
1
Implementing options to run Birth Death Skyline Serial
#133
ksw9
opened
2 years ago
1
Fix CRAN issues
#132
richelbilderbeek
closed
2 years ago
3
Feature request: allow multiple MRCA priors
#131
richelbilderbeek
opened
2 years ago
7
Feature request: add offset
#130
joelnitta
opened
3 years ago
14
beautier writes and leaves behind in .cache files
#129
richelbilderbeek
closed
3 years ago
2
Doubling of clockPrior ID
#128
richelbilderbeek
closed
3 years ago
1
Clock rate added twice
#127
richelbilderbeek
closed
3 years ago
2
Broken link found (/join_next?ref_cta=Sign+up&ref_loc=header+logged+out&ref_page=%2F%3Cuser-name%3E%2F%3Crepo-name%3E&source=header-repo&source_repo=ropensci%2Fbeautier)
#126
github-actions[bot]
closed
3 years ago
1
Broken link found (/join_next?ref_cta=Sign+up&ref_loc=header+logged+out&ref_page=%2F%3Cuser-name%3E%2F%3Crepo-name%3E&source=header-repo)
#125
github-actions[bot]
closed
3 years ago
1
Broken link found (/join_next?ref_cta=Sign+up&ref_loc=header+logged+out&ref_page=%2F%3Cuser-name%3E%2F%3Crepo-name%3E&source=header-repo&source_repo=ropensci%2Fbeautier)
#124
github-actions[bot]
closed
3 years ago
1
Broken link found (/join_next?ref_cta=Sign+up&ref_loc=header+logged+out&ref_page=%2F%3Cuser-name%3E%2F%3Crepo-name%3E&source=header-repo)
#123
github-actions[bot]
closed
3 years ago
1
Add missing data doc
#122
richelbilderbeek
closed
3 years ago
2
Add value, upper and lower
#121
richelbilderbeek
closed
3 years ago
1
Phylogeographic diffusion in discrete space
#120
Spatial-R
closed
3 years ago
2
Improve doc create_mcmc
#119
richelbilderbeek
closed
3 years ago
1
Check create_mrca_prior doc
#118
richelbilderbeek
closed
3 years ago
1
Re-create Felinecoronavirus_Envelope_1.xml
#117
richelbilderbeek
opened
4 years ago
0
Re-create minimal v2.6 XML file
#116
richelbilderbeek
closed
3 years ago
1
Cannot create valid MRCA prior
#115
richelbilderbeek
closed
4 years ago
5
Add amino acid substitution models
#114
richelbilderbeek
opened
4 years ago
0
Reword site model and nsm better
#113
richelbilderbeek
opened
4 years ago
1
Fix coercion to logical
#112
richelbilderbeek
closed
1 year ago
0
Build on MacOS again
#111
richelbilderbeek
closed
4 years ago
1
phylo_to_xml_state is a misnomer
#110
richelbilderbeek
closed
3 years ago
1
create_treelog_xml starts with an empty line
#109
richelbilderbeek
opened
4 years ago
0
Use sample_from_prior in NS MCMC?
#108
richelbilderbeek
opened
4 years ago
0
Test if screenlog$filename really creates that file
#107
richelbilderbeek
closed
4 years ago
2
Test if tracelog$filename really creates that file
#106
richelbilderbeek
closed
4 years ago
2
Test if treelog$filename really creates that file
#105
richelbilderbeek
closed
4 years ago
1
Init tracelog filename
#104
richelbilderbeek
closed
4 years ago
1
Rename XML creation functions
#103
richelbilderbeek
closed
4 years ago
1
New version is 2.3 instead of 3.0
#102
richelbilderbeek
closed
4 years ago
1
Add tracelog
#101
richelbilderbeek
closed
4 years ago
1
Add screenlog
#100
richelbilderbeek
closed
4 years ago
2
Add treelog
#99
richelbilderbeek
closed
4 years ago
4
Add 'Pre burnin' to create_mcmc
#98
richelbilderbeek
closed
4 years ago
2
Add 'Num initialization attemps' to create_mcmc
#97
richelbilderbeek
closed
4 years ago
3
Add 'sample_from_prior' to create_mcmc
#96
richelbilderbeek
closed
4 years ago
2
Do what BEAUti does
#95
richelbilderbeek
closed
4 years ago
1
Mismatch between number of phylogenies and number of estimates
#94
richelbilderbeek
closed
4 years ago
5
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