API for olli0601/PANGEA.HIV.sim
PANGEA.HIV.sim

Global functions
PANGEA.BetweenHostEvolutionaryRateModifier.create.sampler.v1 Source code
PANGEA.GTR.params Man page Source code
PANGEA.HPTN071.input.parser.v4 Source code
PANGEA.ImportSimulator.SimulateIndexCase Source code
PANGEA.ImportSimulator.SimulateStartingTimeOfIndexCase.v2 Source code
PANGEA.RootSeq.create.sampler Man page Source code
PANGEA.RootSeqSim.get.ancestral.seq Source code
PANGEA.RootSeqSim.get.ancestral.seq.pg Source code
PANGEA.RootSeqSim.get.ancestral.seq.withDecompression Source code
PANGEA.SeqGen.createInputFile Source code
PANGEA.SeqGen.run.v4 Source code
PANGEA.Seqsampler.SimulateGuideToSamplingTimes.v2 Source code
PANGEA.Seqsampler.sample.fixed.to.prop Source code
PANGEA.Seqsampler.sample.prop.to.T1SEQ Source code
PANGEA.Seqsampler.sample.prop.to.diagnosis Source code
PANGEA.Seqsampler.sample.prop.to.diagnosis.b4intervention Source code
PANGEA.Seqsampler.sample.prop.to.untreated Source code
PANGEA.Seqsampler.v4 Source code
PANGEA.SeroPrevalenceSurvey Source code
PANGEA.TransmissionEdgeEvolutionaryRate.create.sampler Man page Source code
PANGEA.WithinHostEvolutionaryRate.create.sampler.v1 Man page Source code
PANGEA.add.gaps Source code
PANGEA.add.gaps.allocate.chunks.to.sequences Source code
PANGEA.add.gaps.merge.and.maintain.triplets Source code
PANGEA.add.gaps.simulate Source code
PANGEA.align.from.basefreq Source code
cmd.HPTN071.input.parser.v4 Man page Source code
cmd.HPTN071.simulator Man page Source code
cmd.SeqGen Source code
cmd.SeqGen.createInputFiles Man page Source code
cmd.SeqGen.run Man page Source code
cmd.VirusTreeSimulator Man page Source code
cmd.gendist Source code
cmd.haircut.call Source code
cmd.hpccaller Source code
cmd.hpcsys Source code
cmd.hpcwrapper Source code
cmd.treecomparison Source code
cmd.various Source code
hivc.beast2out.read.nexus.and.stats Source code
hivc.beast2out.read.nodeidtree Source code
hivc.beast2out.read.nodestats Source code
onAttach Source code
onLoad Source code
pipeline.various Source code
prog.PANGEA.AddGaps.run.v1 Source code
prog.treecomparison Source code
seq.addrootnode Source code
seq.bootstrap.gd Source code
seq.collapse.singles Source code
seq.get.gap.chunks Source code
seq.read.newick Source code
seq.rmgaps Source code
seq.singleton2bifurcatingtree Source code
seq.unique Source code
sim.regional Man page Source code
sim.regional.args Man page Source code
olli0601/PANGEA.HIV.sim documentation built on Nov. 23, 2017, 4:10 a.m.