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(initial) | patch
current 2.1 release
authorparadis <paradis@6e262413-ae40-0410-9e79-b911bd7a66b7>
Fri, 4 Jan 2008 18:15:23 +0000 (18:15 +0000)
committerparadis <paradis@6e262413-ae40-0410-9e79-b911bd7a66b7>
Fri, 4 Jan 2008 18:15:23 +0000 (18:15 +0000)
commitc827059eeafc8cbe41c812b26979543ab287803e
treed47a3362813d2d681fa576f37f151c86ce0751f5tree | snapshot
current 2.1 release

git-svn-id: https://svn.mpl.ird.fr/ape/dev/ape@11 6e262413-ae40-0410-9e79-b911bd7a66b7
241 files changed:
COPYING [new file with mode: 0644] blob
Changes [new file with mode: 0644] blob
DESCRIPTION [new file with mode: 0644] blob
R/Cheverud.R [new file with mode: 0644] blob
R/DNA.R [new file with mode: 0644] blob
R/MoranI.R [new file with mode: 0644] blob
R/PGLS.R [new file with mode: 0644] blob
R/ace.R [new file with mode: 0644] blob
R/all.equal.phylo.R [new file with mode: 0644] blob
R/as.matching.R [new file with mode: 0644] blob
R/as.phylo.R [new file with mode: 0644] blob
R/as.phylo.formula.R [new file with mode: 0644] blob
R/balance.R [new file with mode: 0644] blob
R/bind.tree.R [new file with mode: 0644] blob
R/birthdeath.R [new file with mode: 0644] blob
R/branching.times.R [new file with mode: 0644] blob
R/cherry.R [new file with mode: 0644] blob
R/chronoMPL.R [new file with mode: 0644] blob
R/chronopl.R [new file with mode: 0644] blob
R/coalescent.intervals.R [new file with mode: 0644] blob
R/collapse.singles.R [new file with mode: 0644] blob
R/collapsed.intervals.R [new file with mode: 0644] blob
R/compar.gee.R [new file with mode: 0644] blob
R/compar.lynch.R [new file with mode: 0644] blob
R/compar.ou.R [new file with mode: 0644] blob
R/cophenetic.phylo.R [new file with mode: 0644] blob
R/dist.gene.R [new file with mode: 0644] blob
R/dist.topo.R [new file with mode: 0644] blob
R/diversi.gof.R [new file with mode: 0644] blob
R/diversi.time.R [new file with mode: 0644] blob
R/drop.tip.R [new file with mode: 0644] blob
R/evolve.phylo.R [new file with mode: 0644] blob
R/extract.popsize.R [new file with mode: 0644] blob
R/gammaStat.R [new file with mode: 0644] blob
R/heterozygosity.R [new file with mode: 0644] blob
R/howmanytrees.R [new file with mode: 0644] blob
R/identify.phylo.R [new file with mode: 0644] blob
R/is.binary.tree.R [new file with mode: 0644] blob
R/is.ultrametric.R [new file with mode: 0644] blob
R/klastorin.R [new file with mode: 0644] blob
R/ladderize.R [new file with mode: 0644] blob
R/ltt.plot.R [new file with mode: 0644] blob
R/mantel.test.R [new file with mode: 0644] blob
R/matexpo.R [new file with mode: 0644] blob
R/mcmc.popsize.R [new file with mode: 0644] blob
R/me.R [new file with mode: 0644] blob
R/mlphylo.R [new file with mode: 0644] blob
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R/mst.R [new file with mode: 0644] blob
R/multi2di.R [new file with mode: 0644] blob
R/nj.R [new file with mode: 0644] blob
R/nodelabels.R [new file with mode: 0644] blob
R/nprs.R [new file with mode: 0644] blob
R/phymltest.R [new file with mode: 0644] blob
R/pic.R [new file with mode: 0644] blob
R/plot.ancestral.R [new file with mode: 0644] blob
R/plot.phylo.R [new file with mode: 0644] blob
R/plot.popsize.R [new file with mode: 0644] blob
R/read.GenBank.R [new file with mode: 0644] blob
R/read.caic.R [new file with mode: 0644] blob
R/read.dna.R [new file with mode: 0644] blob
R/read.nexus.R [new file with mode: 0644] blob
R/read.nexus.data.R [new file with mode: 0644] blob
R/read.tree.R [new file with mode: 0644] blob
R/reorder.phylo.R [new file with mode: 0644] blob
R/root.R [new file with mode: 0644] blob
R/rotate.R [new file with mode: 0644] blob
R/rtree.R [new file with mode: 0644] blob
R/scales.R [new file with mode: 0644] blob
R/sh.test.R [new file with mode: 0644] blob
R/skyline.R [new file with mode: 0644] blob
R/skylineplot.R [new file with mode: 0644] blob
R/summary.phylo.R [new file with mode: 0644] blob
R/theta.R [new file with mode: 0644] blob
R/unique.multiPhylo.R [new file with mode: 0644] blob
R/varcomp.R [new file with mode: 0644] blob
R/vcv.phylo.R [new file with mode: 0644] blob
R/which.edge.R [new file with mode: 0644] blob
R/write.dna.R [new file with mode: 0644] blob
R/write.nexus.R [new file with mode: 0644] blob
R/write.nexus.data.R [new file with mode: 0644] blob
R/write.tree.R [new file with mode: 0644] blob
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R/zoom.R [new file with mode: 0644] blob
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Thanks [new file with mode: 0644] blob
data/bird.families.R [new file with mode: 0644] blob
data/bird.orders.R [new file with mode: 0644] blob
data/carnivora.csv [new file with mode: 0644] blob
data/chiroptera.rda [new file with mode: 0644] blob
data/cynipids.R [new file with mode: 0644] blob
data/cynipids.txt [new file with mode: 0644] blob
data/hivtree.newick.R [new file with mode: 0644] blob
data/hivtree.table.txt [new file with mode: 0644] blob
data/landplants.newick.R [new file with mode: 0644] blob
data/opsin.newick.R [new file with mode: 0644] blob
data/woodmouse.R [new file with mode: 0644] blob
data/woodmouse.txt [new file with mode: 0644] blob
data/xenarthra.R [new file with mode: 0644] blob
inst/CITATION [new file with mode: 0644] blob
inst/doc/MoranI.Rnw [new file with mode: 0644] blob
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inst/doc/ape.bib [new file with mode: 0644] blob
man/DNAbin.Rd [new file with mode: 0644] blob
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man/Initialize.corPhyl.Rd [new file with mode: 0644] blob
man/MoranI.Rd [new file with mode: 0644] blob
man/NPRS.criterion.Rd [new file with mode: 0644] blob
man/ace.Rd [new file with mode: 0644] blob
man/add.scale.bar.Rd [new file with mode: 0644] blob
man/all.equal.phylo.Rd [new file with mode: 0644] blob
man/ape-internal.Rd [new file with mode: 0644] blob
man/as.alignment.Rd [new file with mode: 0644] blob
man/as.matching.Rd [new file with mode: 0644] blob
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man/as.phylo.formula.Rd [new file with mode: 0644] blob
man/axisPhylo.Rd [new file with mode: 0644] blob
man/balance.Rd [new file with mode: 0644] blob
man/base.freq.Rd [new file with mode: 0644] blob
man/bd.ext.Rd [new file with mode: 0644] blob
man/bind.tree.Rd [new file with mode: 0644] blob
man/bionj.Rd [new file with mode: 0644] blob
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man/bird.orders.Rd [new file with mode: 0644] blob
man/birthdeath.Rd [new file with mode: 0644] blob
man/boot.phylo.Rd [new file with mode: 0644] blob
man/branching.times.Rd [new file with mode: 0644] blob
man/carnivora.Rd [new file with mode: 0644] blob
man/cherry.Rd [new file with mode: 0644] blob
man/chiroptera.Rd [new file with mode: 0644] blob
man/chronoMPL.Rd [new file with mode: 0644] blob
man/chronogram.Rd [new file with mode: 0644] blob
man/chronopl.Rd [new file with mode: 0644] blob
man/coalescent.intervals.Rd [new file with mode: 0644] blob
man/collapse.singles.Rd [new file with mode: 0644] blob
man/collapsed.intervals.Rd [new file with mode: 0644] blob
man/compar.cheverud.Rd [new file with mode: 0644] blob
man/compar.gee.Rd [new file with mode: 0644] blob
man/compar.lynch.Rd [new file with mode: 0644] blob
man/compar.ou.Rd [new file with mode: 0644] blob
man/compute.brlen.Rd [new file with mode: 0644] blob
man/consensus.Rd [new file with mode: 0644] blob
man/cophenetic.phylo.Rd [new file with mode: 0644] blob
man/corBrownian.Rd [new file with mode: 0644] blob
man/corClasses.Rd [new file with mode: 0644] blob
man/corGrafen.Rd [new file with mode: 0644] blob
man/corMartins.Rd [new file with mode: 0644] blob
man/correlogram.formula.Rd [new file with mode: 0644] blob
man/cynipids.Rd [new file with mode: 0644] blob
man/dist.dna.Rd [new file with mode: 0644] blob
man/dist.gene.Rd [new file with mode: 0644] blob
man/dist.topo.Rd [new file with mode: 0644] blob
man/diversi.gof.Rd [new file with mode: 0644] blob
man/diversi.time.Rd [new file with mode: 0644] blob
man/drop.tip.Rd [new file with mode: 0644] blob
man/evolve.phylo.Rd [new file with mode: 0644] blob
man/fastme.Rd [new file with mode: 0644] blob
man/gammaStat.Rd [new file with mode: 0644] blob
man/heterozygosity.Rd [new file with mode: 0644] blob
man/hivtree.Rd [new file with mode: 0644] blob
man/howmanytrees.Rd [new file with mode: 0644] blob
man/identify.phylo.Rd [new file with mode: 0644] blob
man/is.binary.tree.Rd [new file with mode: 0644] blob
man/is.ultrametric.Rd [new file with mode: 0644] blob
man/klastorin.Rd [new file with mode: 0644] blob
man/ladderize.Rd [new file with mode: 0644] blob
man/landplants.Rd [new file with mode: 0644] blob
man/ltt.plot.Rd [new file with mode: 0644] blob
man/mantel.test.Rd [new file with mode: 0644] blob
man/matexpo.Rd [new file with mode: 0644] blob
man/mcmc.popsize.Rd [new file with mode: 0644] blob
man/mlphylo.Rd [new file with mode: 0644] blob
man/mrca.Rd [new file with mode: 0644] blob
man/mst.Rd [new file with mode: 0644] blob
man/multi2di.Rd [new file with mode: 0644] blob
man/nj.Rd [new file with mode: 0644] blob
man/node.depth.Rd [new file with mode: 0644] blob
man/nodelabels.Rd [new file with mode: 0644] blob
man/nuc.div.Rd [new file with mode: 0644] blob
man/opsin.Rd [new file with mode: 0644] blob
man/phymltest.Rd [new file with mode: 0644] blob
man/pic.Rd [new file with mode: 0644] blob
man/plot.ancestral.Rd [new file with mode: 0644] blob
man/plot.correlogram.Rd [new file with mode: 0644] blob
man/plot.phylo.Rd [new file with mode: 0644] blob
man/plot.varcomp.Rd [new file with mode: 0644] blob
man/print.phylo.Rd [new file with mode: 0644] blob
man/ratogram.Rd [new file with mode: 0644] blob
man/read.GenBank.Rd [new file with mode: 0644] blob
man/read.caic.Rd [new file with mode: 0644] blob
man/read.dna.Rd [new file with mode: 0644] blob
man/read.nexus.Rd [new file with mode: 0644] blob
man/read.nexus.data.Rd [new file with mode: 0644] blob
man/read.tree.Rd [new file with mode: 0644] blob
man/reorder.phylo.Rd [new file with mode: 0644] blob
man/root.Rd [new file with mode: 0644] blob
man/rotate.Rd [new file with mode: 0644] blob
man/rtree.Rd [new file with mode: 0644] blob
man/seg.sites.Rd [new file with mode: 0644] blob
man/sh.test.Rd [new file with mode: 0644] blob
man/skyline.Rd [new file with mode: 0644] blob
man/skylineplot.Rd [new file with mode: 0644] blob
man/summary.phylo.Rd [new file with mode: 0644] blob
man/theta.h.Rd [new file with mode: 0644] blob
man/theta.k.Rd [new file with mode: 0644] blob
man/theta.s.Rd [new file with mode: 0644] blob
man/unique.multiPhylo.Rd [new file with mode: 0644] blob
man/varcomp.Rd [new file with mode: 0644] blob
man/vcv.phylo.Rd [new file with mode: 0644] blob
man/weight.taxo.Rd [new file with mode: 0644] blob
man/which.edge.Rd [new file with mode: 0644] blob
man/woodmouse.Rd [new file with mode: 0644] blob
man/write.dna.Rd [new file with mode: 0644] blob
man/write.nexus.Rd [new file with mode: 0644] blob
man/write.nexus.data.Rd [new file with mode: 0644] blob
man/write.tree.Rd [new file with mode: 0644] blob
man/xenarthra.Rd [new file with mode: 0644] blob
man/yule.Rd [new file with mode: 0644] blob
man/yule.cov.Rd [new file with mode: 0644] blob
man/zoom.Rd [new file with mode: 0644] blob
src/BIONJ.c [new file with mode: 0644] blob
src/Makevars [new file with mode: 0644] blob
src/NNI.c [new file with mode: 0644] blob
src/bNNI.c [new file with mode: 0644] blob
src/bipartition.c [new file with mode: 0644] blob
src/dist_dna.c [new file with mode: 0644] blob
src/heap.c [new file with mode: 0644] blob
src/mat_expo.c [new file with mode: 0644] blob
src/me.c [new file with mode: 0644] blob
src/me.h [new file with mode: 0644] blob
src/me_balanced.c [new file with mode: 0644] blob
src/me_ols.c [new file with mode: 0644] blob
src/mlphylo.c [new file with mode: 0644] blob
src/newick.c [new file with mode: 0644] blob
src/nj.c [new file with mode: 0644] blob
src/nprsfunc.c [new file with mode: 0644] blob
src/pic.c [new file with mode: 0644] blob
src/plot_phylo.c [new file with mode: 0644] blob
src/reorder_phylo.c [new file with mode: 0644] blob
src/treefunc.c [new file with mode: 0644] blob
Local fork of ape (analysis of ecology)