Files in heibl/ips

Interfaces to Phylogenetic Software in R

.Rbuildignore

.github/workflows/rhub.yaml

.gitignore

CRAN-RELEASE

DESCRIPTION

NAMESPACE

NEWS.md R/DNAbin2index.R R/EmptyCells.R R/aliscore.R R/are.tips.consecutive.R R/assembleDataNode.R R/assembleDistributionNode.R R/assembleInitNode.R R/assembleLikelihoodNode.R R/assembleLoggers.R R/assembleOperators.R R/assemblePriorNode.R R/assembleStateNode.R R/assembleTaxonSetPrior.R R/assembleTreeNode.R R/beastLog.R R/blastn.R R/code.simple.gaps.R R/collapseUnsupportedEdges.R R/combMyTree.R R/del.miss.R R/deleteEmptyCells.R R/deleteGaps.R R/descendants.R R/eoi.R R/extractBEASTstats.R R/extractMRBAYESstats.R R/findORF.R R/fixNodes.R R/forceEqualTipHeights.R R/formatSet.R R/gammaPrior.R R/gblocks.R R/identifyEmptyCells.R R/index2DNAbin.R R/mafft.R R/mafft.merge.R R/matrixBlock.R R/mrbayes.R R/mrbayes.lset.R R/mrbayes.mcmc.R R/mrbayes.prset.R R/multistateMCMC.R R/multistateML.R R/neighboringPairs.R R/noi.R R/ntip.R R/oi.R R/operator.R R/parameter.R R/partitionfinder.R R/pathd8.R R/phylo2mafft.R R/phylo2mst.R R/pis.R R/prank.R R/raxml.R R/raxml.partitions.R R/rbeauti.R R/rbeauti.taxonset.R R/rc.R R/read.R R/read.beast.R R/read.beast.table.R R/read.fas.R R/read.mrbayes.R R/read.nex.R R/read.phy.R R/read.starbeast.R R/read.xml.R R/setClock.R R/setMCMC.R R/sister.R R/splitIntoClades.R R/str2cha.R R/terminal.clades.R R/terminalSisters.R R/tipHeights.R R/traitRate.R R/traitRateOutput.R R/traitRateParams.R R/trimEnds.R R/unlistFirstLevel.R R/unresolve.clade.R R/write.fas.R R/write.nex.R R/write.phy.R README.Rmd README.md

TODO

cran-comments.md data-raw/DATASET.R

data-raw/log_list.csv

data-raw/log_list.ods

data-raw/operator_list.csv

data-raw/operator_list.ods

data/ips.16S.rda

data/ips.28S.rda

data/ips.cox1.rda

data/ips.tree.rda

data/log_list.rda

data/operator_list.rda

deprecated/centroidDecomposition.R deprecated/rc.R deprecated/splitEqualSubtrees.R dev/DEV-centroid-decomposition.R dev/Untitled.R dev/matchPattern.R

inst/CITATION

ips.Rproj

man/DNAbin2index.Rd man/EmptyCells.Rd man/aliscore.Rd man/beastLog.Rd man/blastn.Rd man/code.simple.gaps.Rd man/collapseUnsupportedEdges.Rd man/combMyTree.Rd man/del.miss.Rd man/deleteGaps.Rd man/descendants.Rd man/fixNodes.Rd man/forceEqualTipHeights.Rd man/gblocks.Rd man/index2DNAbin.Rd man/ips-internal.Rd man/ips-package.Rd man/ips.16S.Rd man/ips.28S.Rd man/ips.cox1.Rd man/ips.tree.Rd man/mafft.Rd man/mafft.merge.Rd man/mrbayes.Rd man/mrbayes.lset.Rd man/mrbayes.mcmc.Rd man/mrbayes.prset.Rd man/multistate.Rd man/neighboringPairs.Rd man/ntip.Rd man/oi.Rd man/partitionfinder.Rd man/pathd8.Rd man/phylo2mafft.Rd man/phylo2mst.Rd man/pis.Rd man/prank.Rd man/raxml.Rd man/raxml.partitions.Rd man/rbeauti.Rd man/rc.Rd man/read.Rd man/read.beast.Rd man/read.beast.table.Rd man/sister.Rd man/splitIntoClades.Rd man/terminalSisters.Rd man/tipHeights.Rd man/traitRate.Rd man/trimEnds.Rd man/unlistFirstLevel.Rd man/write.fas.Rd

revdep/.gitignore

revdep/README.md revdep/cran.md revdep/failures.md revdep/problems.md

heibl/ips documentation built on April 24, 2024, 3:19 a.m.