epineticseq: EpiNeticSeq

Simulate evolution of viral sequences alongth with population dynamics

Author
Eamon O'Dea
Date of publication
None
Maintainer
Eamon O'Dea <ebo@mail.utexas.edu>
License
GPL (>= 2)
Version
0.1

View on R-Forge

Files in this package

epineticseq
epineticseq/NAMESPACE
epineticseq/R
epineticseq/R/epinetics-internal.R
epineticseq/R/summarize.ll.R
epineticseq/R/ts.stats.plotter.R
epineticseq/R/seq.list.to.nexus.R
epineticseq/R/sc.excess.degree.fixed.point.R
epineticseq/R/make.multi.phy.time.series.R
epineticseq/R/interp-funs.R
epineticseq/R/mean.outbreaks.series.R
epineticseq/R/net-shuffle.R
epineticseq/R/ldist.at.time.R
epineticseq/R/mean.dist.tau.df.R
epineticseq/R/add.mutation.events.R
epineticseq/R/get.tau.R
epineticseq/R/make.time.series.R
epineticseq/R/strain.degree.dist.R
epineticseq/R/get.t.crit.R
epineticseq/R/ll.crunch.R
epineticseq/R/get.exp.rand.net.R
epineticseq/R/degree.pgf.R
epineticseq/R/get.sim.size.at.tau.R
epineticseq/R/mean.epidemics.series.R
epineticseq/R/within.epi.sim.ssa.R
epineticseq/R/simulate.sequences.R
epineticseq/R/cond-hist.R
epineticseq/R/strain.degree.pmf.R
epineticseq/R/make.multi.time.series.R
epineticseq/R/full.sc.epi.size.R
epineticseq/R/simulate.epidemic.R
epineticseq/R/get.times.mutated.R
epineticseq/R/list.mean.hist.R
epineticseq/R/dist.at.time.R
epineticseq/R/check.cov.mu.R
epineticseq/R/infect.R
epineticseq/R/custplot.R
epineticseq/R/final.sc.epi.size.R
epineticseq/R/ssa.outbreaks.series.R
epineticseq/R/final.epi.size.R
epineticseq/R/cond.hist.max.R
epineticseq/R/sc.dist.R
epineticseq/R/vt.excess.degree.pgf.R
epineticseq/R/new.epi.env.R
epineticseq/R/site.mutate.R
epineticseq/R/recovery.R
epineticseq/R/zzz.R
epineticseq/R/sequence.mutate.R
epineticseq/R/strain.mutate.R
epineticseq/R/get.reg.rand.graph.R
epineticseq/R/mutate.sequence.R
epineticseq/R/net.simpsons.index.R
epineticseq/R/generate.sequences.R
epineticseq/R/excess.sc.degree.pgf.R
epineticseq/R/strain.degree.pgf.R
epineticseq/R/immunize.R
epineticseq/R/get.phylo.network.R
epineticseq/R/tau-functions.R
epineticseq/R/ssa.epidemics.series.R
epineticseq/R/cust3plot.R
epineticseq/R/cond.hist.mean.R
epineticseq/R/pext.by.sc.R
epineticseq/R/sequence.bot.R
epineticseq/R/make.var.in.mean.vs.t.df.R
epineticseq/R/mts.cruncher.R
epineticseq/R/within.param.loop.R
epineticseq/R/mts.stats.R
epineticseq/R/vt.degree.pgf.R
epineticseq/R/sample.host.id.with.hist.R
epineticseq/R/list.mean.dist.R
epineticseq/R/get.sim.mean.dist.at.tau.R
epineticseq/R/sample.sequences.R
epineticseq/R/simulate.next.event.R
epineticseq/R/rnbernexp.R
epineticseq/R/excess.degree.pgf.R
epineticseq/R/cond.hist.var.R
epineticseq/R/get.mean.outbreak.R
epineticseq/R/param.loop.R
epineticseq/R/havel-hakimi.R
epineticseq/R/mean.sc.degree.R
epineticseq/R/epi.sim.ssa.R
epineticseq/R/build.circulant.R
epineticseq/R/get.p.dists.R
epineticseq/R/get.infection.tree.R
epineticseq/R/make.phy.time.series.R
epineticseq/R/immunize.deg.dist.tail.R
epineticseq/R/vert.status.plot.R
epineticseq/R/sim.prob.epi.by.hist.R
epineticseq/DESCRIPTION
epineticseq/src
epineticseq/src/hashtable_utility.c
epineticseq/src/hashtable.h
epineticseq/src/networkapi.h
epineticseq/src/hashtable_utility.h
epineticseq/src/networkapi.c
epineticseq/src/simulator.c
epineticseq/src/utils.h
epineticseq/src/hashtable.c
epineticseq/src/epinetics_common.h
epineticseq/src/utils.c
epineticseq/src/hashtable_itr.h
epineticseq/src/hashtable_itr.c
epineticseq/src/hashtable_private.h