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  Repository: slackdce64150
  Repository brief: SlackDCE Project
  Repository description: Repository 64bit by Slackware DCE (https://web.libera.chat/#slackdce) packages are compiled from the full collection of unmodified SlackBuilds.org scripts
  Repository url: https://slackware.uk/slackdce/packages/15.0/x86_64/
  File list: MANIFEST.bz2


  
  Package name: paml
  Package version: 4.10.6
  Package arch: x86_64
  Package build: 1_slackdce
  Package compression: txz
  Package required: 
  Package location: ./academic/paml
  Package filename: paml-4.10.6-x86_64-1_slackdce.txz

Description:

| paml (PAML: Phylogenetic Analysis by Maximum Likelihood)
| 
| PAML is a package of programs for phylogenetic analyses of DNA or
| protein sequences using maximum likelihood. PAML is not good for
| tree making. It may be used to estimate parameters and test
| hypotheses to study the evolutionary process, when you have
| reconstructed trees using other programs such as PAUP*, PHYLIP,
| MOLPHY, PhyML, RaxML, etc.
| 
| Home: http://abacus.gene.ucl.ac.uk/software/paml.html
| 
| 

This package contains 184 files:

usr/share/paml/dat/jones-dcmut.dat
usr/share/paml/dat/dayhoff-dcmut.dat
usr/share/paml/examples/ndata/codeml-ndata.ctl
usr/share/paml/examples/ndata/baseml-ndata.ctl
usr/share/paml/examples/ndata/4s-mc.txt
usr/share/paml/examples/ndata/4s-mc.trees
usr/share/paml/examples/YN00abglobin.result.txt
usr/share/paml/examples/yn00.ctl
usr/share/paml/dat/wag.dat
usr/share/paml/examples/CladeModelCD/tree.txt
usr/share/paml/examples/stewart.trees
usr/share/paml/examples/stewart.aa
install/slack-desc
usr/share/paml/examples/lysin/SiteNumbering.txt
usr/share/paml/examples/MouseLemurs/README2.txt
usr/share/paml/examples/mtCDNAape/README.txt
usr/share/paml/examples/mtCDNA/README.txt
usr/share/paml/examples/lysozyme/README.txt
usr/share/paml/examples/lysin/README.txt
usr/share/paml/examples/TipDate.HIV2/README.txt
usr/share/paml/examples/README.txt
usr/share/paml/examples/MouseLemurs/README.txt
usr/share/paml/examples/MHC.Swanson2002MBE/README.txt
usr/share/paml/examples/HIVNSsites/README.txt
usr/share/paml/examples/DatingSoftBound/README.txt
usr/share/paml/Simulation/Codon/README.txt
usr/doc/paml-4.10.6/README.md
usr/share/paml/examples/DatingSoftBound/README.BayesFactor.txt
usr/share/paml/examples/lysin/RasMol.txt
usr/share/paml/examples/pamp.ctl
usr/doc/paml-4.10.6/pamlHistory.txt
usr/doc/paml-4.10.6/pamlFAQs.pdf
usr/doc/paml-4.10.6/pamlDOC.pdf
usr/share/paml/examples/CladeModelCD/PAMLCladeModelCDnotes.pdf
usr/doc/paml-4.10.6/paml.SlackBuild
usr/share/paml/examples/mtCDNAape/OmegaAA.dat
usr/share/paml/dat/MtZoa.dat
usr/share/paml/dat/mtREV24.dat
usr/share/paml/examples/mtprim9.nuc
usr/share/paml/examples/MouseLemurs/mtmam.dat
usr/share/paml/dat/mtmam.dat
usr/share/paml/examples/DatingSoftBound/mtCDNApri123.txt
usr/share/paml/examples/mtCDNA/mtCDNApri.trees
usr/share/paml/examples/DatingSoftBound/mtCDNApri.trees
usr/share/paml/examples/mtCDNA/mtCDNApri.nuc
usr/share/paml/examples/mtCDNA/mtCDNApri.aa
usr/share/paml/examples/mtCDNA/mtCDNAmam.trees
usr/share/paml/examples/mtCDNA/mtCDNAmam.nuc
usr/share/paml/examples/mtCDNAape/mtCDNAape.txt
usr/share/paml/examples/mtCDNAape/mtCDNAape.trees
usr/share/paml/examples/mtCDNAape/mtCDNA.HC.txt
usr/share/paml/dat/mtArt.dat
usr/share/paml/examples/MouseLemurs/MouseLemurs123.nuc
usr/share/paml/examples/MouseLemurs/MouseLemurs.trees
usr/share/paml/examples/MouseLemurs/MouseLemurs.nuc
usr/share/paml/examples/MouseLemurs/MouseLemurs.aa
usr/share/paml/examples/mtCDNA/miyata.dat
usr/share/paml/dat/miyata.dat
usr/doc/paml-4.10.6/MCMCtreeDOC.pdf
usr/share/paml/examples/TipDate.FluH1/mcmctreeClock3.ctl
usr/share/paml/examples/TipDate.FluH1/mcmctreeClock2.ctl
usr/share/paml/examples/TipDate.FluH1/mcmctreeClock1.ctl
usr/doc/paml-4.10.6/MCMCtree.Tutorials.pdf
usr/share/paml/examples/DatingSoftBound/mcmctree.Infinitesites.ctl
usr/share/paml/examples/TipDate.HIV2/mcmctree.ExactlnL.ctl
usr/share/paml/mcmctree.ctl
usr/share/paml/examples/mcmctree.ctl
usr/share/paml/examples/TipDate.HIV2/mcmctree.ctl
usr/share/paml/examples/DatingSoftBound/bf1/mcmctree.ctl
usr/share/paml/examples/DatingSoftBound/bf2/mcmctree.ctl
usr/share/paml/examples/DatingSoftBound/mcmctree.ctl
usr/share/paml/Simulation/Codon/MCcodonNSsites.dat
usr/share/paml/Simulation/Codon/MCcodonNSclade.dat
usr/share/paml/Simulation/Codon/MCcodonNSbranchsites.dat
usr/share/paml/Simulation/Codon/MCcodonNSbranches.dat
usr/share/paml/examples/MCcodon.dat
usr/share/paml/examples/MCbaseRandomTree.dat
usr/share/paml/examples/MCbase.dat
usr/share/paml/examples/MCaa.dat
usr/share/paml/examples/lysozyme/lysozymeSmall.txt
usr/share/paml/examples/lysozyme/lysozymeSmall.trees
usr/share/paml/examples/lysozyme/lysozymeSmall.nuc
usr/share/paml/examples/lysozyme/lysozymeSmall.ctl
usr/share/paml/examples/lysozyme/lysozymeLarge.trees
usr/share/paml/examples/lysozyme/lysozymeLarge.nuc
usr/share/paml/examples/lysozyme/lysozymeLarge.ctl
usr/share/paml/examples/lysin/lysinYangSwanson2002.nuc
usr/share/paml/examples/lysin/lysin.trees
usr/share/paml/examples/lysin/lysin.nuc
usr/share/paml/dat/lg.dat
usr/share/paml/dat/jones.dat
usr/share/paml/examples/TipDate.HIV2/in.BV.HKYG5
usr/share/paml/examples/TipDate.FluH1/in.BV.HKYG5
usr/share/paml/examples/horai.trees
usr/share/paml/examples/horai.nuc
usr/share/paml/examples/HIVNSsites/HIVenvSweden4s.txt
usr/share/paml/examples/HIVNSsites/HIVenvSweden4s.trees
usr/share/paml/examples/HIVNSsites/HIVenvSweden.txt
usr/share/paml/examples/HIVNSsites/HIVenvSweden.trees
usr/share/paml/examples/TipDate.HIV2/HIV2ge.txt
usr/share/paml/examples/TipDate.HIV2/HIV2ge.tre
usr/share/paml/examples/TipDate.FluH1/H1.txt
usr/share/paml/examples/TipDate.FluH1/H1.tre
usr/share/paml/examples/TipDate.FluH1/H1.NodeNumbers.tre
usr/share/paml/examples/TipDate.FluH1/H1.nexus
usr/share/paml/examples/TipDate.FluH1/H1.Beast.xml
usr/share/paml/examples/TipDate.FluH1/H1.Beast.Nulldata.xml
usr/share/paml/dat/grantham.dat
usr/share/paml/examples/GeneticCode.txt
usr/share/paml/dat/g1974v.dat
usr/share/paml/dat/g1974p.dat
usr/share/paml/dat/g1974c.dat
usr/share/paml/dat/g1974a.dat
usr/share/paml/examples/DatingSoftBound/FixedDsClock23.txt
usr/doc/paml-4.10.6/eigenQREV.pdf
usr/share/paml/examples/CladeModelCD/ECP_EDN_15.nuc
usr/share/paml/examples/dNdSGene1.nuc
usr/share/paml/dat/dayhoff.dat
usr/share/paml/dat/cpREV64.dat
usr/share/paml/dat/cpREV10.dat
usr/share/paml/examples/TipDate.FluH1/commands.txt
usr/share/paml/examples/MouseLemurs/codonml2.ctl
usr/share/paml/examples/codonml.ctl
usr/share/paml/examples/MouseLemurs/codonml.ctl
usr/share/paml/examples/lysin/codemlYangSwanson2002.ctl
usr/share/paml/examples/mtCDNAape/codeml.HC.ctl
usr/share/paml/examples/mtCDNAape/codeml.ctl
usr/share/paml/examples/mtCDNA/codeml.ctl
usr/share/paml/examples/lysin/codeml.ctl
usr/share/paml/examples/lysozyme/codeml.ctl
usr/share/paml/examples/codeml.ctl
usr/share/paml/examples/MouseLemurs/codeml.ctl
usr/share/paml/examples/MHC.Swanson2002MBE/codeml.ctl
usr/share/paml/examples/HIVNSsites/codeml.ctl
usr/share/paml/codeml.ctl
usr/share/paml/Simulation/Codon/codeml.ctl
usr/share/paml/examples/CladeModelCD/codeml.CladeD.ctl
usr/share/paml/examples/CladeModelCD/codeml.CladeC.ctl
usr/share/paml/examples/mtCDNA/codeml.AAcodon.ctl
usr/share/paml/examples/brown.trees
usr/share/paml/examples/brown.rooted.trees
usr/share/paml/examples/brown.nuc
usr/share/paml/examples/MHC.Swanson2002MBE/bigmhc.trees
usr/share/paml/examples/MHC.Swanson2002MBE/bigmhc.phy
usr/share/paml/examples/DatingSoftBound/BFdriverDOC.pdf
usr/share/paml/examples/DatingSoftBound/BF.Clock23.xlsx
usr/share/paml/examples/MouseLemurs/baseml2.ctl
usr/share/paml/examples/baseml.ctl
usr/share/paml/examples/TipDate.HIV2/baseml.ctl
usr/share/paml/examples/TipDate.FluH1/baseml.ctl
usr/share/paml/examples/MouseLemurs/baseml.ctl
usr/share/paml/baseml.ctl
usr/share/paml/examples/abglobin.trees
usr/share/paml/examples/abglobin.nuc
usr/share/paml/examples/abglobin.aa
usr/share/paml/examples/MouseLemurs/aaml2.ctl
usr/share/paml/examples/aaml.ctl
usr/share/paml/examples/MouseLemurs/aaml.ctl
usr/share/paml/examples/mtCDNA/AAcodon.result.txt
usr/share/paml/examples/9s.trees
usr/share/paml/examples/6s.trees
usr/share/paml/examples/5s.trees
usr/share/paml/examples/4s.trees
usr/share/paml/examples/3s.trees
usr/share/paml/examples/mtCDNAape/2s.trees
usr/bin/yn00
usr/libexec/paml/PositiveSitesNEB
usr/libexec/paml/PositiveSitesBS
usr/libexec/paml/PositiveSitesBEB
usr/share/paml/examples/paupstart
usr/share/paml/examples/paupend
usr/share/paml/examples/paupblock
usr/bin/pamp
usr/libexec/paml/multiruns
usr/bin/mcmctree
usr/doc/paml-4.10.6/LICENSE
usr/libexec/paml/evolverNSsites
usr/libexec/paml/evolverNSbranchsites
usr/libexec/paml/evolverNSbranches
usr/bin/evolver
usr/bin/codeml
usr/bin/chi2
usr/bin/basemlg
usr/bin/baseml

Repository:	slackdce64150
Repository brief:	SlackDCE Project
Repository description:	Repository 64bit by Slackware DCE (https://web.libera.chat/#slackdce) packages are compiled from the full collection of unmodified SlackBuilds.org scripts
Repository url:	https://slackware.uk/slackdce/packages/15.0/x86_64/
File list:	MANIFEST.bz2

Package name:	paml
Package version:	4.10.6
Package arch:	x86_64
Package build:	1_slackdce
Package compression:	txz
Package required:
Package location:	./academic/paml
Package filename:	paml-4.10.6-x86_64-1_slackdce.txz
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