tgvaughan/bacter issues and pull requests

#34 - Can't change substitution model in 2.7 beauti template

Issue - State: closed - Opened by tgvaughan over 1 year ago - 1 comment
Labels: CRITICAL

#33 - migation to 2.7

Pull Request - State: closed - Opened by jordandouglas almost 2 years ago

#32 - Links in BEAST 2 package manager not working

Issue - State: closed - Opened by bernadettecy over 2 years ago - 2 comments

#31 - ee468d7 breaks ACGLogReader

Issue - State: closed - Opened by KonstantinHoffmann about 3 years ago - 1 comment

#30 - Apparently bacter is not using the GPU to perform the calculations.

Issue - State: closed - Opened by EnzoAndree over 3 years ago - 1 comment

#29 - spelling

Pull Request - State: closed - Opened by alexeid over 7 years ago - 1 comment

#28 - Likelihood errors appearing when estimating clockrate

Issue - State: closed - Opened by tgvaughan about 8 years ago - 1 comment
Labels: CRITICAL

#27 - Reshuffled some code

Pull Request - State: open - Opened by 4ment over 8 years ago - 1 comment

#26 - Need likelihood support for ambiguous characters

Issue - State: closed - Opened by tgvaughan about 9 years ago - 1 comment

#25 - ACGLikelihood is WASTEFUL

Issue - State: closed - Opened by tgvaughan about 9 years ago - 1 comment
Labels: CRITICAL

#24 - ACGAnnotator produces posterior supports > 1.0

Issue - State: closed - Opened by tgvaughan about 9 years ago
Labels: bug, CRITICAL

#23 - Add a Gitter chat badge to README.md

Pull Request - State: closed - Opened by gitter-badger about 9 years ago

#22 - Add a Gitter chat badge to README.md

Pull Request - State: closed - Opened by gitter-badger about 9 years ago

#21 - ACGLikelihood doesn't cache

Issue - State: closed - Opened by tgvaughan over 9 years ago - 2 comments
Labels: enhancement, CRITICAL

#20 - Mysterious CFUniform error

Issue - State: open - Opened by tgvaughan over 9 years ago - 4 comments
Labels: bug

#19 - BEAUti template includes non-ACG up/down operators

Issue - State: closed - Opened by tgvaughan over 9 years ago
Labels: bug, CRITICAL

#18 - BEAUti template doesn't permit site model gamma shape estimation

Issue - State: closed - Opened by tgvaughan over 9 years ago - 1 comment
Labels: bug, CRITICAL

#17 - Need a tool for summarizing sampled ARGs

Issue - State: closed - Opened by tgvaughan over 9 years ago - 1 comment
Labels: enhancement, CRITICAL

#16 - Make likelihood multithreading optional.

Issue - State: closed - Opened by tgvaughan over 9 years ago - 1 comment
Labels: enhancement, CRITICAL

#15 - Missing likelihood support for multiple loci

Issue - State: closed - Opened by tgvaughan over 9 years ago
Labels: CRITICAL

#14 - Abstract out existing model from core BACTER code

Issue - State: closed - Opened by tgvaughan over 10 years ago - 1 comment

#13 - BEAUti integration

Issue - State: closed - Opened by tgvaughan over 10 years ago
Labels: enhancement, CRITICAL

#12 - Implement full CO model with overlapping conversions

Issue - State: closed - Opened by tgvaughan over 10 years ago
Labels: enhancement, CRITICAL

#11 - Chain resumption not working.

Issue - State: closed - Opened by tgvaughan over 10 years ago - 4 comments
Labels: bug, CRITICAL

#10 - Missing data not handled correctly by RecombinationGraphLikelihood

Issue - State: closed - Opened by tgvaughan over 10 years ago
Labels: bug

#9 - RecombinationGraphLikelihood assumes LinkedHashMultiset.elementSet() ordered

Issue - State: closed - Opened by tgvaughan over 10 years ago - 3 comments
Labels: invalid, wontfix

#8 - multiple implementations of CF event list

Issue - State: closed - Opened by tgvaughan over 10 years ago

#7 - Implement XML operator tests as unit tests

Issue - State: closed - Opened by tgvaughan over 10 years ago - 2 comments
Labels: enhancement, CRITICAL

#6 - Marginal tree traversal is broken

Issue - State: closed - Opened by tgvaughan over 10 years ago - 1 comment
Labels: bug

#5 - Add/Remove test only ever has 1 recombination event

Issue - State: closed - Opened by tgvaughan almost 11 years ago
Labels: question

#4 - Marginal tree traversal is broken

Issue - State: closed - Opened by tgvaughan about 11 years ago - 1 comment
Labels: bug

#3 - Complete ARG operator set

Issue - State: closed - Opened by tgvaughan about 11 years ago
Labels: enhancement

#2 - Extended Newick representation of ARGs

Issue - State: closed - Opened by tgvaughan about 11 years ago - 1 comment

#1 - Pass non-trivial ARG likelihood unit test