Files in olli0601/big.phylo
big.phylo
.DS_Store
.Rapp.history
.gitignore
.project
DESCRIPTION
LICENSE
NAMESPACE
R/bigphylo.cmd.R
R/bigphylo.fun.R
R/bigphylo.pipeline.R
R/bigphylo.prog.R
R/bigphylo.util.R
README.md
TITLE
data/.DS_Store
data/HIV_example.fasta
data/HIV_example.rda
data/IAS_primarydrugresistance_201303.mycsv
data/IAS_primarydrugresistance_201303.xlsx
data/nz_h3n2.phylip
data/nz_h3n2.rda
data/standard_nt_code.mycsv
data/standard_nt_code.xlsx
doc/.DS_Store
doc/README_ExaML.pdf
example/.DS_Store
example/.Rapp.history
example/.gitignore
example/ExaML_info.nz_h3n2.finaltree.002
example/ExaML_result.nz_h3n2.finaltree.002
example/ex.h3n2.ExaML.bootstrap.per.proc.R
example/ex.h3n2.ExaML.getbootstrapseq.R
example/ex.remove.resistancemut.R
example/exa.Mon_Jan_20_10:24:26_2014.sh
example/exa.Mon_Jan_20_10:33:03_2014.sh
example/exa.Mon_Jan_20_10:34:44_2014.sh
example/exa.Mon_Jan_20_10:34:45_2014.sh
example/nz_h3n2.R
example/nz_h3n2.phylip.000
example/nz_h3n2.phylip.001
inst/.DS_Store
inst/AC_drugresistance_201508.rda
inst/FastTree
inst/FastTree.c
inst/PhyDstar.tar.gz
inst/big.mvr.Rscript
inst/create.bootstrapalignment.Rscript
inst/jmodeltest-2.1.10.tar.gz
inst/lsd.dates.Rscript
inst/multi2di.Rscript
inst/raxmlHPC.v7.4.2.tar.gz
inst/refseq_hiv1_hxb2.rda
inst/rm.drm.Rscript
inst/strip.gaps.Rscript
inst/treedater.Rscript
man/.DS_Store
man/cmd.examl.bootstrap.Rd
man/cmd.examl.bootstrap.on.one.machine.Rd
man/cmd.examl.bsalignment.Rd
man/cmd.examl.bsstarttree.Rd
man/cmd.examl.cleanup.Rd
man/cmd.examl.single.Rd
man/cmd.fasttree.Rd
man/cmd.fasttree.add.bootstrap.nodelabels.to.base.tree.Rd
man/cmd.fasttree.many.bootstraps.Rd
man/cmd.fasttree.one.bootstrap.Rd
man/cmd.jmodeltest.Rd
man/cmd.lsd.Rd
man/cmd.lsd.dates.Rd
man/cmd.multi2di.Rd
man/cmd.mvr.Rd
man/cmd.phydstar.Rd
man/cmd.raxml.Rd
man/cmd.rm.resistance.Rd
man/cmd.strip.gaps.Rd
man/cmd.treedater.Rd
man/pipeline.ExaML.bootstrap.per.proc.Rd
man/prog.examl.getbootstrapseq.Rd
man/seq.align.based.on.common.reference.Rd
man/seq.blast.Rd
man/seq.blast.read.Rd
man/seq.dist.Rd
man/seq.find.Rd
man/seq.gc.content.Rd
man/seq.length.Rd
man/seq.proportion.ambiguous.Rd
man/seq.read.GenBank.Rd
man/seq.replace.Rd
man/seq.rm.drugresistance.Rd
man/seq.rmgaps.Rd
man/seq.strip.gap.Rd
man/seq.unique.Rd
man/seq.write.dna.nexus.Rd
man/seq.write.dna.phylip.Rd
man/seq.write.dna.phylip.triangular.Rd
misc/.DS_Store
misc/prjcts.R
misc/startme.R
src/Makefile
src/Makevars
