hyphy-2.3.13-x86_64-1_slonly.txz


Advertisement

Description

hyphy - Hypothesis Testing using Phylogenies

Property Value
Distribution Slackware 14.2
Repository Slackonly x86_64
Package filename hyphy-2.3.13-x86_64-1_slonly.txz
Package name hyphy
Package version 2.3.13
Package release 1_slonly
Package architecture x86_64
Package type txz
Homepage -
License -
Maintainer -
Download size 3.27 MB
Installed size 10.24 MB
HyPhy is a software package for the analysis of genetic sequences,
in particular the inference of natural selection, using techniques
in phylogenetics, molecular evolution, and machine learning. It
features a rich scripting language for limitless customization of
analyses.
Home: https://veg.github.io/hyphy-site/

Alternatives

Package Version Architecture Repository
hyphy - - -

Download

Type URL
Mirror packages.slackonly.com
Binary Package hyphy-2.3.13-x86_64-1_slonly.txz
Source Package -

Install Howto

  1. Download hyphy-2.3.13-x86_64-1_slonly.txz
  2. Install hyphy txz package:
    # upgradepkg --install-new hyphy-2.3.13-x86_64-1_slonly.txz

Files

Path
/install/slack-desc
/usr/
/usr/bin/HYPHYMP
/usr/doc/
/usr/doc/hyphy-2.3.13/Getting Started With HyPhy.pdf
/usr/doc/hyphy-2.3.13/LICENSE
/usr/doc/hyphy-2.3.13/README.md
/usr/doc/hyphy-2.3.13/References
/usr/doc/hyphy-2.3.13/SelectionAnalyses.pdf
/usr/doc/hyphy-2.3.13/hyphy.SlackBuild
/usr/lib64/
/usr/lib64/hyphy/
/usr/lib64/hyphy/ChartAddIns/Approximate_CDF
/usr/lib64/hyphy/ChartAddIns/Column Operations
/usr/lib64/hyphy/ChartAddIns/Complex Select Cells By Value
/usr/lib64/hyphy/ChartAddIns/Contigency Table
/usr/lib64/hyphy/ChartAddIns/Covariance
/usr/lib64/hyphy/ChartAddIns/Descriptive Statistics
/usr/lib64/hyphy/ChartAddIns/Distribution Moments
/usr/lib64/hyphy/ChartAddIns/Gaussian Penalty Clustering
/usr/lib64/hyphy/ChartAddIns/Goodness of Fit
/usr/lib64/hyphy/ChartAddIns/Histogram
/usr/lib64/hyphy/ChartAddIns/K-Mean Clustering
/usr/lib64/hyphy/ChartAddIns/KH Resampler
/usr/lib64/hyphy/ChartAddIns/Linear Fit
/usr/lib64/hyphy/ChartAddIns/Mean Profile Plot
/usr/lib64/hyphy/ChartAddIns/Median Profile Plot
/usr/lib64/hyphy/ChartAddIns/Poisson Mixture Fit
/usr/lib64/hyphy/ChartAddIns/Populate Cells
/usr/lib64/hyphy/ChartAddIns/Profile Mean Clustering
/usr/lib64/hyphy/ChartAddIns/Running Sum
/usr/lib64/hyphy/ChartAddIns/Select Cells By Index
/usr/lib64/hyphy/ChartAddIns/Select Cells By Value
/usr/lib64/hyphy/ChartAddIns/SingleColumn
/usr/lib64/hyphy/ChartAddIns/Sort
/usr/lib64/hyphy/ChartAddIns/DBAddIns/DescriptiveStats.bf
/usr/lib64/hyphy/ChartAddIns/DBAddIns/FromSQLFlatFile.bf
/usr/lib64/hyphy/ChartAddIns/DBAddIns/HY_DBW_TemplateList
/usr/lib64/hyphy/ChartAddIns/DBAddIns/ToChartWindow.bf
/usr/lib64/hyphy/ChartAddIns/DBAddIns/ToConsole.bf
/usr/lib64/hyphy/ChartAddIns/DBAddIns/ToFastaFile.bf
/usr/lib64/hyphy/ChartAddIns/DBAddIns/ToFastaFileFromPandit.bf
/usr/lib64/hyphy/ChartAddIns/DBAddIns/ToFrontierFastaFile.bf
/usr/lib64/hyphy/ChartAddIns/DBAddIns/ToSQLFlatFile.bf
/usr/lib64/hyphy/ChartAddIns/DBAddIns/ToTabFile.bf
/usr/lib64/hyphy/ChartAddIns/DistributionAddIns/Event Posteriors
/usr/lib64/hyphy/ChartAddIns/DistributionAddIns/Most Likely Class Assignment
/usr/lib64/hyphy/ChartAddIns/DistributionAddIns/Posterior Distribution
/usr/lib64/hyphy/ChartAddIns/DistributionAddIns/Posterior Moments
/usr/lib64/hyphy/ChartAddIns/DistributionAddIns/Prior Moments
/usr/lib64/hyphy/ChartAddIns/DistributionAddIns/Includes/posteriors.ibf
/usr/lib64/hyphy/ChartAddIns/Samplers/lhc.bf
/usr/lib64/hyphy/ChartAddIns/Samplers/sir.bf
/usr/lib64/hyphy/ChartAddIns/Samplers/srs.ibf
/usr/lib64/hyphy/DatapanelAddIns/Character Plot
/usr/lib64/hyphy/DatapanelAddIns/Character Plot Two
/usr/lib64/hyphy/DatapanelAddIns/Compare Subsets
/usr/lib64/hyphy/DatapanelAddIns/Sequence Plot
/usr/lib64/hyphy/DatapanelAddIns/TBD/Character Plot By Sequence
/usr/lib64/hyphy/DatapanelAddIns/ibfs/char_colors.def
/usr/lib64/hyphy/GeneticCodes/Alt_Yeast_Nuclear.cod
/usr/lib64/hyphy/GeneticCodes/Ascidian_mtDNA.cod
/usr/lib64/hyphy/GeneticCodes/Blepharisma_Nuclear.cod
/usr/lib64/hyphy/GeneticCodes/Ciliate.cod
/usr/lib64/hyphy/GeneticCodes/Echinoderm_mtDNA.cod
/usr/lib64/hyphy/GeneticCodes/Euplotid_Nuclear.cod
/usr/lib64/hyphy/GeneticCodes/Flatworm_mtDNA.cod
/usr/lib64/hyphy/GeneticCodes/Invertebrate_mtDNA.cod
/usr/lib64/hyphy/GeneticCodes/Mold_mtDNA.cod
/usr/lib64/hyphy/GeneticCodes/Thraustochytrium_mtDNA.cod
/usr/lib64/hyphy/GeneticCodes/Vertebratemtdna.cod
/usr/lib64/hyphy/GeneticCodes/Yeast_mtDNA.cod
/usr/lib64/hyphy/SubstitutionClasses/aa.bf
/usr/lib64/hyphy/SubstitutionClasses/codon.bf
/usr/lib64/hyphy/SubstitutionClasses/dinuc.bf
/usr/lib64/hyphy/SubstitutionClasses/nuc.bf
/usr/lib64/hyphy/SubstitutionClasses/AAEFV/Equal
/usr/lib64/hyphy/SubstitutionClasses/AAEFV/Estimated
/usr/lib64/hyphy/SubstitutionClasses/AAEFV/Observed In Data Set
/usr/lib64/hyphy/SubstitutionClasses/AAEFV/Observed In Partition
/usr/lib64/hyphy/SubstitutionClasses/CodonEFV/Equal
/usr/lib64/hyphy/SubstitutionClasses/CodonEFV/Observed Codon
/usr/lib64/hyphy/SubstitutionClasses/CodonEFV/Observed Nuc 3 params.
/usr/lib64/hyphy/SubstitutionClasses/CodonEFV/Observed Nuc 9 params.
/usr/lib64/hyphy/SubstitutionClasses/Heterogeneity/2 Bin Discrete
/usr/lib64/hyphy/SubstitutionClasses/Heterogeneity/Beta
/usr/lib64/hyphy/SubstitutionClasses/Heterogeneity/Beta-Gamma
/usr/lib64/hyphy/SubstitutionClasses/Heterogeneity/General Discrete
/usr/lib64/hyphy/SubstitutionClasses/Heterogeneity/Half Normal
/usr/lib64/hyphy/SubstitutionClasses/Heterogeneity/Lognormal
/usr/lib64/hyphy/SubstitutionClasses/NucEFV/Equal
/usr/lib64/hyphy/SubstitutionClasses/NucEFV/Estimated
/usr/lib64/hyphy/SubstitutionClasses/NucEFV/Observed In Data Set
/usr/lib64/hyphy/SubstitutionClasses/NucEFV/Observed In Partition
/usr/lib64/hyphy/SubstitutionModels/
/usr/lib64/hyphy/SubstitutionModels/Aminoacid/Dayhoff.mdl
/usr/lib64/hyphy/SubstitutionModels/Aminoacid/EIAA.mdl
/usr/lib64/hyphy/SubstitutionModels/Aminoacid/Fitness.mdl
/usr/lib64/hyphy/SubstitutionModels/Aminoacid/Jones.mdl
/usr/lib64/hyphy/SubstitutionModels/Aminoacid/mtREV.mdl
/usr/lib64/hyphy/SubstitutionModels/Binary/F81.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/GY94_3x4.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/Lineage_MG94xHKY85.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94REVOmegaCF3x4.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94_3x4.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94_HKY85x3_4.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94_REV_3x4.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94xHKY85_3x4_2Rates.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94xREV_3x4_DualRV.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94xREV_3x4_DualRV_GDD.mdl
/usr/lib64/hyphy/SubstitutionModels/Codon/MG94xTN93_3x4.mdl
/usr/lib64/hyphy/SubstitutionModels/Nucleotide/EFVEstimated.ibf
/usr/lib64/hyphy/SubstitutionModels/Nucleotide/F81.mdl
/usr/lib64/hyphy/SubstitutionModels/Nucleotide/HKY85.mdl
/usr/lib64/hyphy/SubstitutionModels/Nucleotide/REV.mdl
/usr/lib64/hyphy/SubstitutionModels/Nucleotide/REVBetaGamma.mdl
/usr/lib64/hyphy/SubstitutionModels/Nucleotide/TrN.mdl
/usr/lib64/hyphy/SubstitutionModels/User/
/usr/lib64/hyphy/SubstitutionModels/User/Nucleotide/JC69
/usr/lib64/hyphy/SubstitutionModels/User/Nucleotide/K2P
/usr/lib64/hyphy/TemplateBatchFiles/454.bf
/usr/lib64/hyphy/TemplateBatchFiles/AAModelComparison.bf
/usr/lib64/hyphy/TemplateBatchFiles/AddABias.ibf
/usr/lib64/hyphy/TemplateBatchFiles/AnalyzeCodonData.bf
/usr/lib64/hyphy/TemplateBatchFiles/AnalyzeCodonDataMPI.bf
/usr/lib64/hyphy/TemplateBatchFiles/AnalyzeDiNucData.bf
/usr/lib64/hyphy/TemplateBatchFiles/AnalyzeNucDataFreq.bf
/usr/lib64/hyphy/TemplateBatchFiles/AnalyzeNucDataFreq2.bf
/usr/lib64/hyphy/TemplateBatchFiles/AnalyzeNucProtData.bf
/usr/lib64/hyphy/TemplateBatchFiles/AnalyzeNucProtData2.bf
/usr/lib64/hyphy/TemplateBatchFiles/BGM.bf
/usr/lib64/hyphy/TemplateBatchFiles/BS2007.bf
/usr/lib64/hyphy/TemplateBatchFiles/BUSTED-SRV.bf
/usr/lib64/hyphy/TemplateBatchFiles/BivariateCodonRateAnalysis.bf
/usr/lib64/hyphy/TemplateBatchFiles/BranchClassDNDS.bf
/usr/lib64/hyphy/TemplateBatchFiles/BranchSiteREL.bf
/usr/lib64/hyphy/TemplateBatchFiles/BranchSiteRELMultiModel.bf
/usr/lib64/hyphy/TemplateBatchFiles/BranchSwap.bf
/usr/lib64/hyphy/TemplateBatchFiles/CleanGaps.bf
/usr/lib64/hyphy/TemplateBatchFiles/CleanStopCodons.bf
/usr/lib64/hyphy/TemplateBatchFiles/ClusterAnalysis.bf
/usr/lib64/hyphy/TemplateBatchFiles/ClusterByDistanceRange.bf
/usr/lib64/hyphy/TemplateBatchFiles/CodonBivariateRateProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/CodonModelCompare.bf
/usr/lib64/hyphy/TemplateBatchFiles/CodonToProtein.bf
/usr/lib64/hyphy/TemplateBatchFiles/CodonUsageBias.bf
/usr/lib64/hyphy/TemplateBatchFiles/CompareSelectivePressure.bf
/usr/lib64/hyphy/TemplateBatchFiles/CompareSelectivePressureIVL.bf
/usr/lib64/hyphy/TemplateBatchFiles/ConvertDataFile.bf
/usr/lib64/hyphy/TemplateBatchFiles/DatedTipsMolecularClock.bf
/usr/lib64/hyphy/TemplateBatchFiles/DirectionalREL.bf
/usr/lib64/hyphy/TemplateBatchFiles/DirectionalREL_MF.bf
/usr/lib64/hyphy/TemplateBatchFiles/DistanceMatrix.bf
/usr/lib64/hyphy/TemplateBatchFiles/DistanceMatrix_Splits.bf
/usr/lib64/hyphy/TemplateBatchFiles/F_ST.bf
/usr/lib64/hyphy/TemplateBatchFiles/FitnessAAModels.bf
/usr/lib64/hyphy/TemplateBatchFiles/GADatedClock.bf
/usr/lib64/hyphy/TemplateBatchFiles/GADatedClock.ibf
/usr/lib64/hyphy/TemplateBatchFiles/GADatedClockProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/GADatedClockProcessorM.bf
/usr/lib64/hyphy/TemplateBatchFiles/GARD.bf
/usr/lib64/hyphy/TemplateBatchFiles/GARDProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/GARD_GA_CHC.ibf
/usr/lib64/hyphy/TemplateBatchFiles/GARecomb.bf
/usr/lib64/hyphy/TemplateBatchFiles/GA_CHC.ibf
/usr/lib64/hyphy/TemplateBatchFiles/GA_CHC_Binary.ibf
/usr/lib64/hyphy/TemplateBatchFiles/GA_CHC_kernel.ibf
/usr/lib64/hyphy/TemplateBatchFiles/Gateaux.bf
/usr/lib64/hyphy/TemplateBatchFiles/Gateaux2.bf
/usr/lib64/hyphy/TemplateBatchFiles/GateauxMR.bf
/usr/lib64/hyphy/TemplateBatchFiles/KHTest.bf
/usr/lib64/hyphy/TemplateBatchFiles/Kernel_PCA.bf
/usr/lib64/hyphy/TemplateBatchFiles/Kernel_k_means.bf
/usr/lib64/hyphy/TemplateBatchFiles/Kernel_support.ibf
/usr/lib64/hyphy/TemplateBatchFiles/LEISR.bf
/usr/lib64/hyphy/TemplateBatchFiles/LHT.bf
/usr/lib64/hyphy/TemplateBatchFiles/LRTRecombTest.bf
/usr/lib64/hyphy/TemplateBatchFiles/LZ_Complexity.bf
/usr/lib64/hyphy/TemplateBatchFiles/LocalBranchSiteTest.bf
/usr/lib64/hyphy/TemplateBatchFiles/LocalMolClock.bf
/usr/lib64/hyphy/TemplateBatchFiles/MEDS.bf
/usr/lib64/hyphy/TemplateBatchFiles/MEME_mf.bf
/usr/lib64/hyphy/TemplateBatchFiles/MFPSreader.def
/usr/lib64/hyphy/TemplateBatchFiles/MFPositiveSelection.bf
/usr/lib64/hyphy/TemplateBatchFiles/MFPositiveSelectionPooled.bf
/usr/lib64/hyphy/TemplateBatchFiles/MGvsGY.bf
/usr/lib64/hyphy/TemplateBatchFiles/MaxChi2.bf
/usr/lib64/hyphy/TemplateBatchFiles/MergeSequences.bf
/usr/lib64/hyphy/TemplateBatchFiles/MergeSites.bf
/usr/lib64/hyphy/TemplateBatchFiles/ModelSelectorAAProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/ModelSelectorBranch.bf
/usr/lib64/hyphy/TemplateBatchFiles/ModelSelectorCodon.bf
/usr/lib64/hyphy/TemplateBatchFiles/ModelSelectorCodon.ibf
/usr/lib64/hyphy/TemplateBatchFiles/ModelSelectorCodonProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/ModelSelectorRNA.bf
/usr/lib64/hyphy/TemplateBatchFiles/ModelSelectorRNA_1.bf
/usr/lib64/hyphy/TemplateBatchFiles/ModelTest.bf
/usr/lib64/hyphy/TemplateBatchFiles/MolClockAllRoots.bf
/usr/lib64/hyphy/TemplateBatchFiles/MolecularClock.bf
/usr/lib64/hyphy/TemplateBatchFiles/NeighborJoining.bf
/usr/lib64/hyphy/TemplateBatchFiles/NielsenYang.bf
/usr/lib64/hyphy/TemplateBatchFiles/NucModelCompare.bf
/usr/lib64/hyphy/TemplateBatchFiles/PARRIS.bf
/usr/lib64/hyphy/TemplateBatchFiles/PairwiseRelativeRate.bf
/usr/lib64/hyphy/TemplateBatchFiles/PairwiseRelativeRatio.bf
/usr/lib64/hyphy/TemplateBatchFiles/PairwiseSiteDiversity.bf
/usr/lib64/hyphy/TemplateBatchFiles/PartitionDataFile.bf
/usr/lib64/hyphy/TemplateBatchFiles/PartitionRateComparison.bf
/usr/lib64/hyphy/TemplateBatchFiles/Phylohandbook.bf
/usr/lib64/hyphy/TemplateBatchFiles/Plato.bf
/usr/lib64/hyphy/TemplateBatchFiles/PositiveSelectionLI.bf
/usr/lib64/hyphy/TemplateBatchFiles/QuickSelectionDetection-MEME-internal.bf
/usr/lib64/hyphy/TemplateBatchFiles/QuickSelectionDetection.bf
/usr/lib64/hyphy/TemplateBatchFiles/QuickSelectionDetectionMF.bf
/usr/lib64/hyphy/TemplateBatchFiles/RateClassCounter.bf
/usr/lib64/hyphy/TemplateBatchFiles/ReduceDataSetMatrix.bf
/usr/lib64/hyphy/TemplateBatchFiles/RelativeRate.bf
/usr/lib64/hyphy/TemplateBatchFiles/RelativeRateL.bf
/usr/lib64/hyphy/TemplateBatchFiles/RelativeRatio.bf
/usr/lib64/hyphy/TemplateBatchFiles/SGASimProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/SGEmulator.bf
/usr/lib64/hyphy/TemplateBatchFiles/SGEmulator_MF.bf
/usr/lib64/hyphy/TemplateBatchFiles/SGIvL.bf
/usr/lib64/hyphy/TemplateBatchFiles/SSRatesTest.bf
/usr/lib64/hyphy/TemplateBatchFiles/SampleProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/SandNSAmbigs.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionLRT.bf
/usr/lib64/hyphy/TemplateBatchFiles/SeqAlignShared.ibf
/usr/lib64/hyphy/TemplateBatchFiles/SeqAlignment.bf
/usr/lib64/hyphy/TemplateBatchFiles/SeqAlignmentCodon.bf
/usr/lib64/hyphy/TemplateBatchFiles/SeqAlignmentCodonShared.ibf
/usr/lib64/hyphy/TemplateBatchFiles/SeqAlignmentNuc.bf
/usr/lib64/hyphy/TemplateBatchFiles/SeqAlignmentNucShared.ibf
/usr/lib64/hyphy/TemplateBatchFiles/SeqAlignmentProt.bf
/usr/lib64/hyphy/TemplateBatchFiles/SeqAlignmentTop75.bf
/usr/lib64/hyphy/TemplateBatchFiles/SequentialAddition.bf
/usr/lib64/hyphy/TemplateBatchFiles/SequentialAddition.ibf
/usr/lib64/hyphy/TemplateBatchFiles/SimilarityPlot.bf
/usr/lib64/hyphy/TemplateBatchFiles/SimmondsAI.bf
/usr/lib64/hyphy/TemplateBatchFiles/SimpleMutationCounter.bf
/usr/lib64/hyphy/TemplateBatchFiles/SingleBreakpointRecomb-2.bf
/usr/lib64/hyphy/TemplateBatchFiles/SingleBreakpointRecomb.bf
/usr/lib64/hyphy/TemplateBatchFiles/SiteRates.bf
/usr/lib64/hyphy/TemplateBatchFiles/SiteRates2.bf
/usr/lib64/hyphy/TemplateBatchFiles/SlatkinMaddison-2parts.bf
/usr/lib64/hyphy/TemplateBatchFiles/SlatkinMaddison.bf
/usr/lib64/hyphy/TemplateBatchFiles/SlidingNucWindow.bf
/usr/lib64/hyphy/TemplateBatchFiles/SlidingWindowAnalysis.bf
/usr/lib64/hyphy/TemplateBatchFiles/SplitSequencesByPattern.bf
/usr/lib64/hyphy/TemplateBatchFiles/StarDecomposition.bf
/usr/lib64/hyphy/TemplateBatchFiles/StrandGRMTest.bf
/usr/lib64/hyphy/TemplateBatchFiles/StripStopCodons.bf
/usr/lib64/hyphy/TemplateBatchFiles/SubtreeSelectionComparison.bf
/usr/lib64/hyphy/TemplateBatchFiles/TestBranchDNDS.bf
/usr/lib64/hyphy/TemplateBatchFiles/TestClade.bf
/usr/lib64/hyphy/TemplateBatchFiles/TestCladeMeans.bf
/usr/lib64/hyphy/TemplateBatchFiles/TopologySearch.bf
/usr/lib64/hyphy/TemplateBatchFiles/TopologySearchConstrained.bf
/usr/lib64/hyphy/TemplateBatchFiles/TreeCorrelationCoefficients.bf
/usr/lib64/hyphy/TemplateBatchFiles/TreeTools.ibf
/usr/lib64/hyphy/TemplateBatchFiles/UpperBound.bf
/usr/lib64/hyphy/TemplateBatchFiles/WANC.bf
/usr/lib64/hyphy/TemplateBatchFiles/WebUpdate.bf
/usr/lib64/hyphy/TemplateBatchFiles/YangNielsenBranchSite2005.bf
/usr/lib64/hyphy/TemplateBatchFiles/_BMS_Aux.ibf
/usr/lib64/hyphy/TemplateBatchFiles/_CMS_Aux.ibf
/usr/lib64/hyphy/TemplateBatchFiles/_MFReader_.ibf
/usr/lib64/hyphy/TemplateBatchFiles/_MSCOneStep.ibf
/usr/lib64/hyphy/TemplateBatchFiles/_tipDater.ibf
/usr/lib64/hyphy/TemplateBatchFiles/bayesgraph.ibf
/usr/lib64/hyphy/TemplateBatchFiles/binomial.ibf
/usr/lib64/hyphy/TemplateBatchFiles/branchSwappingFunctions.bf
/usr/lib64/hyphy/TemplateBatchFiles/categoryEcho.bf
/usr/lib64/hyphy/TemplateBatchFiles/chooseDistanceFormula.def
/usr/lib64/hyphy/TemplateBatchFiles/dNdSBivariateRateAnalysis.bf
/usr/lib64/hyphy/TemplateBatchFiles/dNdSBivariateRateAnalysis_CompareDS.bf
/usr/lib64/hyphy/TemplateBatchFiles/dNdSDistributionComparison.bf
/usr/lib64/hyphy/TemplateBatchFiles/dNdSDistributionComparisonPartitions.bf
/usr/lib64/hyphy/TemplateBatchFiles/dNdSRateAnalysis.bf
/usr/lib64/hyphy/TemplateBatchFiles/dNdSRateAnalysis_MF.bf
/usr/lib64/hyphy/TemplateBatchFiles/dNdSResultProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/dSdNTreeTools.ibf
/usr/lib64/hyphy/TemplateBatchFiles/distanceMethodNPBootstrap.bf
/usr/lib64/hyphy/TemplateBatchFiles/distanceRMethodNPBootstrap.bf
/usr/lib64/hyphy/TemplateBatchFiles/doNNISwap.bf
/usr/lib64/hyphy/TemplateBatchFiles/doSPRSwap.bf
/usr/lib64/hyphy/TemplateBatchFiles/files.lst
/usr/lib64/hyphy/TemplateBatchFiles/globalChecker.ibf
/usr/lib64/hyphy/TemplateBatchFiles/heuristicMethodNPBootstrap.bf
/usr/lib64/hyphy/TemplateBatchFiles/last.date
/usr/lib64/hyphy/TemplateBatchFiles/molclockBootstrap.bf
/usr/lib64/hyphy/TemplateBatchFiles/pairwiseDistanceEstimator.ibf
/usr/lib64/hyphy/TemplateBatchFiles/pairwiseDistanceEstimatorCounter.ibf
/usr/lib64/hyphy/TemplateBatchFiles/partitionSequences.ibf
/usr/lib64/hyphy/TemplateBatchFiles/post_ancestors.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_counting.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_covariance.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_dNdS.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_lfprofile.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_npbs.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_pbs.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_sampler.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_saveResults.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_sns.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_variance.bf
/usr/lib64/hyphy/TemplateBatchFiles/post_viewResults.bf
/usr/lib64/hyphy/TemplateBatchFiles/postprocessors.lst
/usr/lib64/hyphy/TemplateBatchFiles/qndhelper1.ibf
/usr/lib64/hyphy/TemplateBatchFiles/qndhelper1_mf.ibf
/usr/lib64/hyphy/TemplateBatchFiles/qndhelper2.ibf
/usr/lib64/hyphy/TemplateBatchFiles/qndhelper2_mf.ibf
/usr/lib64/hyphy/TemplateBatchFiles/qndhelper3.ibf
/usr/lib64/hyphy/TemplateBatchFiles/qndhelper4.ibf
/usr/lib64/hyphy/TemplateBatchFiles/queryTree.bf
/usr/lib64/hyphy/TemplateBatchFiles/readIndexFile.bf
/usr/lib64/hyphy/TemplateBatchFiles/relrateBootstrap.bf
/usr/lib64/hyphy/TemplateBatchFiles/relrateBootstrapL.bf
/usr/lib64/hyphy/TemplateBatchFiles/relratioBootstrap.bf
/usr/lib64/hyphy/TemplateBatchFiles/selectModelParameters.bf
/usr/lib64/hyphy/TemplateBatchFiles/simpleBootstrap.bf
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/GY94.mdl
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94GY94xREV_PARRIS_syn3.mdl
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREV.mdl
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate.mdl
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate_Multirate.mdl
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M1.def
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M2.def
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M3.def
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_syn3.def
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_synvar.def
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGenerator.bf
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGeneratorNoPS.bf
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma1.def
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2+Inv.def
/usr/lib64/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2.def
/usr/lib64/hyphy/TemplateBatchFiles/Distances/CodonTools.def
/usr/lib64/hyphy/TemplateBatchFiles/Distances/CodonTools2.def
/usr/lib64/hyphy/TemplateBatchFiles/Distances/CodonToolsMain.def
/usr/lib64/hyphy/TemplateBatchFiles/Distances/JC69
/usr/lib64/hyphy/TemplateBatchFiles/Distances/K2P
/usr/lib64/hyphy/TemplateBatchFiles/Distances/K2P_RV
/usr/lib64/hyphy/TemplateBatchFiles/Distances/Modified_Nei_Gojobori
/usr/lib64/hyphy/TemplateBatchFiles/Distances/Nei_Gojobori
/usr/lib64/hyphy/TemplateBatchFiles/Distances/PC
/usr/lib64/hyphy/TemplateBatchFiles/Distances/PC_MH
/usr/lib64/hyphy/TemplateBatchFiles/Distances/PC_RV
/usr/lib64/hyphy/TemplateBatchFiles/Distances/T3P
/usr/lib64/hyphy/TemplateBatchFiles/Distances/TN84
/usr/lib64/hyphy/TemplateBatchFiles/Distances/TN93
/usr/lib64/hyphy/TemplateBatchFiles/Distances/TN93_RV
/usr/lib64/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ
/usr/lib64/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ_FR
/usr/lib64/hyphy/TemplateBatchFiles/Distances/p_Distance
/usr/lib64/hyphy/TemplateBatchFiles/Distances/p_Distance_aa
/usr/lib64/hyphy/TemplateBatchFiles/Distances/p_Distance_binary
/usr/lib64/hyphy/TemplateBatchFiles/Distances/p_Distance_codon
/usr/lib64/hyphy/TemplateBatchFiles/GUI/crayolaColors.def
/usr/lib64/hyphy/TemplateBatchFiles/ProteinAnalyses/README_relative_prot_rates.md
/usr/lib64/hyphy/TemplateBatchFiles/ProteinAnalyses/relative_prot_rates.bf
/usr/lib64/hyphy/TemplateBatchFiles/Samplers/lhc.bf
/usr/lib64/hyphy/TemplateBatchFiles/Samplers/lhc_supp.ibf
/usr/lib64/hyphy/TemplateBatchFiles/Samplers/sir.bf
/usr/lib64/hyphy/TemplateBatchFiles/Samplers/srs.ibf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/BUSTED.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/BranchSiteREL.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/FADE.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/FEL-contrast.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/FEL.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/FUBAR.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/MEME.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX-Groups.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX-SRV.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/SLAC.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/aBSREL.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/Simulators/BUSTED.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/grid_compute.ibf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/io_functions.ibf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/selection_lib.ibf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/shared-load-file.bf
/usr/lib64/hyphy/TemplateBatchFiles/SelectionAnalyses/testers/FitModel.bf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/190
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/BranchSiteTemplate.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/CF3x4.bf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA_empirical.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff_F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/Default
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/ECM+F+omega.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/ECM+F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/ECM+F3x4.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/ECM+MLFREQS.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/ECM.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EIAA.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EIAAFreq.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EX.dat
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EX.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/F81.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/F81_binary.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/F84.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/F84P.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/GRM.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/GY94.ibf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/GY94.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/GY94customF3x4.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/GY94w9.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween+F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.ibf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin+F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.ibf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/HKY85.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/JC69.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/JC69_binary.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/Jones.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/Jones_F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/K2P.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/K3ST.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/LCAP.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MEC.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94custom.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94customCF3x4.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94customF1x4.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94customFreqs.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94wAA.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61multiple.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAFreqs.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAUserFreqs.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94wEX.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94with9freqs.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MG94x2.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MGFreqsEstimator.ibf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MGwAA.ibf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/MGwEX.ibf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/NRM+Freqs.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/NRM.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/PCH
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/RNA16.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/RNA16A
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/RNA16SvH.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/RNAEqualInput
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/RNAF81
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/RNAMuse95.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/RNAREV
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/RNAREV_1
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/S4
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/STGRM.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/TrN.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/UniversalCode.def
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/WAG.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/WAG_F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/Yang2000Distributions.def
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/chooseGeneticCode.def
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/custm4x4.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/defineGamma.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/defineHM.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/fitness.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/modelParameters.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/modelParameters2.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/modelParameters3.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/modelParameters4.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/modelParameters5.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/models.lst
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/mtMAM.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/mtMAM_F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/mtREV.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24_F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/reducedREV.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/rtREV.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/rtREV_F.mdl
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/BLOSUM62
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/Dayhoff
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/H5N1
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVBetween
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVWithin
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/IAV
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/JTT
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LCAP
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LG
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/MtArt
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/VT
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/WAG
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/cpREV
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/modellist.ibf
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtMAM
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtREV24
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/rtREV
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/.DS_Store
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECM
/usr/lib64/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECMu
/usr/lib64/hyphy/TemplateBatchFiles/Utility/AncestralMapper.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/BranchLengthFitters.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/CoalescentPostProcessor.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/CodonTools.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/DBTools.ibf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/DescriptiveStatistics.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/GrabBag.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/HXB2Mapper.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/LocalMGREV.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/LocalMGREVMLFreqs.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/MPITools.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/NJ.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/PS_Plotters.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/PostScript.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/ProbabilityDistributions.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/ReadDelimitedFiles.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/TreeFunctions.bf
/usr/lib64/hyphy/TemplateBatchFiles/Utility/WriteDelimitedFiles.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/IOFunctions.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/UtilityFunctions.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/all-terms.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/stats.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/convenience/math.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/convenience/matrix.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/convenience/random.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/convenience/regexp.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/DNA.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/binary.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/codon.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/frequencies.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/model_functions.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/parameters.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/rate_variation.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/DNA/GTR.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/DNA/HKY85.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/DNA/JC69.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/binary/charbinary.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/binary/empirical.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/codon/BS_REL.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV_MH.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/REV.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/empirical.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/matrix2dict_aux.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/HIV.ibf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/JC69.ibf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/JTT.ibf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/LG.ibf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/WAG.ibf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/gcpREV.ibf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/mt.ibf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/tasks/alignments.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/tasks/ancestral.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/tasks/estimators.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/tasks/genetic_code.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/tasks/mpi.bf
/usr/lib64/hyphy/TemplateBatchFiles/libv3/tasks/trees.bf
/usr/lib64/hyphy/TopologyInference/Exhaustive_Search
/usr/lib64/hyphy/TopologyInference/Neighbor_Joining
/usr/lib64/hyphy/TopologyInference/Sequential_Addition
/usr/lib64/hyphy/TopologyInference/Star_Decomposition
/usr/lib64/hyphy/TopologyInference/Support/branchSwappingFunctions.bf
/usr/lib64/hyphy/TopologyInference/Support/doNNISwap.bf
/usr/lib64/hyphy/TopologyInference/Support/doSPRSwap.bf
/usr/lib64/hyphy/TreeAddIns/Splits
/usr/lib64/hyphy/TreeAddIns/Tree Statistics
/usr/lib64/hyphy/UserAddins/AAContent
/usr/lib64/hyphy/UserAddins/BatchFileByURL
/usr/lib64/hyphy/UserAddins/BranchLengthCI
/usr/lib64/hyphy/UserAddins/CodonMutationToTreeMapper
/usr/lib64/hyphy/UserAddins/CountSubstitutions
/usr/lib64/hyphy/UserAddins/ExportLikelihoodFunction
/usr/lib64/hyphy/UserAddins/GenBankSequences
/usr/lib64/hyphy/UserAddins/LRT
/usr/lib64/hyphy/UserAddins/ListUserFunctions
/usr/lib64/hyphy/UserAddins/MapSubstitutions
/usr/lib64/hyphy/UserAddins/MeanPairwiseDivergence
/usr/lib64/hyphy/UserAddins/MeanPairwiseDivergenceSubset
/usr/lib64/hyphy/UserAddins/ModelCounter
/usr/lib64/hyphy/UserAddins/RecombinationProcessor.bf
/usr/lib64/hyphy/UserAddins/SimulateFromLF
/usr/lib64/hyphy/UserAddins/Tidbits
/usr/lib64/hyphy/UserAddins/Includes/ChooseALF.ibf
/usr/lib64/hyphy/UserAddins/Includes/MappersHelp.ibf
/usr/lib64/hyphy/UserAddins/Includes/MappersHelpAA.ibf
/usr/lib64/hyphy/UserAddins/OldAddins/AAMutationCounter
/usr/lib64/hyphy/UserAddins/OldAddins/CodonMutationToTreeMapper.bf
/usr/lib64/hyphy/UserAddins/OldAddins/ColorPSTree
/usr/lib64/hyphy/UserAddins/OldAddins/ConvergentAndParallel
/usr/lib64/hyphy/UserAddins/OldAddins/CopyBranchLengths
/usr/lib64/hyphy/UserAddins/OldAddins/DashPSTree
/usr/lib64/hyphy/UserAddins/OldAddins/ExpsPerDirection
/usr/lib64/hyphy/UserAddins/OldAddins/FilterAssignments
/usr/lib64/hyphy/UserAddins/OldAddins/InferredAASubstitutionsCounter
/usr/lib64/hyphy/UserAddins/OldAddins/LocaldNdS
/usr/lib64/hyphy/UserAddins/OldAddins/ModelFitSummary
/usr/lib64/hyphy/UserAddins/OldAddins/ModelFitSummaryAA
/usr/lib64/hyphy/UserAddins/OldAddins/Multiclass DN DS inference
/usr/lib64/hyphy/UserAddins/OldAddins/PartitionBranchesByClasses
/usr/lib64/hyphy/UserAddins/OldAddins/PredictivePosteriorP
/usr/lib64/hyphy/UserAddins/OldAddins/RNARateMatrix
/usr/lib64/hyphy/UserAddins/OldAddins/SimulateAndTabDN_DS
/usr/lib64/hyphy/UserAddins/OldAddins/SimulateFromLF
/usr/lib64/hyphy/UserAddins/OldAddins/TreeLengthConstraint
/usr/lib64/hyphy/UserAddins/OldAddins/dNanddSTrees.bf
/usr/lib64/hyphy/UserAddins/OldAddins/dS and dN factors
/usr/lib64/hyphy/data/.DS_Store
/usr/lib64/hyphy/data/brown.nuc
/usr/lib64/hyphy/data/integrase_BDA.nex
/usr/lib64/hyphy/data/p51.aa
/usr/lib64/hyphy/data/p51.nex
/usr/share/
/usr/share/hyphy/
/usr/share/hyphy/Examples/
/usr/share/hyphy/Examples/BatchLanguage/MatrixIndexing.bf
/usr/share/hyphy/Examples/BatchLanguage/profile_test.bf
/usr/share/hyphy/Examples/Categories/definitions+MLE.bf
/usr/share/hyphy/Examples/Categories/definitions.bf
/usr/share/hyphy/Examples/Categories/definitions2.bf
/usr/share/hyphy/Examples/Categories/definitions3.bf
/usr/share/hyphy/Examples/Categories/displayFunction.bf
/usr/share/hyphy/Examples/Categories/data/aspectrin.nuc
/usr/share/hyphy/Examples/ConstraintDefinition/ReplicateConstraint1.bf
/usr/share/hyphy/Examples/ConstraintDefinition/ReplicateConstraint2.bf
/usr/share/hyphy/Examples/ConstraintDefinition/ReplicateConstraint3.bf
/usr/share/hyphy/Examples/ConstraintDefinition/shared.bf
/usr/share/hyphy/Examples/ConstraintDefinition/data/hiv.seq
/usr/share/hyphy/Examples/DataFilters/HKY852blocks.bf
/usr/share/hyphy/Examples/DataFilters/HKY852blocks2models.bf
/usr/share/hyphy/Examples/DataFilters/data/actin2.flt
/usr/share/hyphy/Examples/MoreComplexModels/ExonIntron.bf
/usr/share/hyphy/Examples/MoreComplexModels/aa.bf
/usr/share/hyphy/Examples/MoreComplexModels/Models/EI.mdl
/usr/share/hyphy/Examples/MoreComplexModels/Models/MG94x2.mdl
/usr/share/hyphy/Examples/MoreComplexModels/data/3.seq
/usr/share/hyphy/Examples/MoreComplexModels/data/stewart.aa
/usr/share/hyphy/Examples/MoreComplexModels/data/ubiq.flt
/usr/share/hyphy/Examples/SimpleAnalyses/F81.bf
/usr/share/hyphy/Examples/SimpleAnalyses/HKY85.bf
/usr/share/hyphy/Examples/SimpleAnalyses/HKY85shared.bf
/usr/share/hyphy/Examples/SimpleAnalyses/JC69.bf
/usr/share/hyphy/Examples/SimpleAnalyses/K2P.bf
/usr/share/hyphy/Examples/SimpleAnalyses/K2Pshared.bf
/usr/share/hyphy/Examples/SimpleAnalyses/Non-Rev.bf
/usr/share/hyphy/Examples/SimpleAnalyses/REV.bf
/usr/share/hyphy/Examples/SimpleAnalyses/REVshared.bf
/usr/share/hyphy/Examples/SimpleAnalyses/data/hiv.nuc
/usr/share/hyphy/Examples/SimpleConstraints/F81K81uf_relratio.bf
/usr/share/hyphy/Examples/SimpleConstraints/F81relrate.bf
/usr/share/hyphy/Examples/SimpleConstraints/F81relratio.bf
/usr/share/hyphy/Examples/SimpleConstraints/HKY85relrate.bf
/usr/share/hyphy/Examples/SimpleConstraints/HKY85relratio.bf
/usr/share/hyphy/Examples/SimpleConstraints/MolecularClockF81.bf
/usr/share/hyphy/Examples/SimpleConstraints/MolecularClockHKY85.bf
/usr/share/hyphy/Examples/SimpleConstraints/data/3.seq
/usr/share/hyphy/Examples/SimpleConstraints/data/aspectrin1.nuc
/usr/share/hyphy/Examples/SimpleConstraints/data/aspectrin2.nuc
/usr/share/hyphy/Examples/SimpleConstraints/data/molclock.seq
/usr/share/hyphy/Examples/Simulation/PBootstrapHetRates.bf
/usr/share/hyphy/Examples/Simulation/ParametricBootstrap.bf
/usr/share/hyphy/Examples/Simulation/RelativeRatePBS.bf
/usr/share/hyphy/Examples/Simulation/data/3.seq
/usr/share/hyphy/Examples/Simulation/data/hiv.nuc

See Also

Package Description
i2c-tools-4.0-x86_64-1_slonly.txz utilities for I2C
i3-4.15-x86_64-1_slonly.txz an improved dynamic tiling window manager
i3-gaps-4.15.0.1-x86_64-1_slonly.txz a tiling window manager for Linux
i3-py-0.6.4-x86_64-1_slonly.txz tools for i3 users and developers
i3blocks-1.4-x86_64-1_slonly.txz A flexible scheduler for your i3bar blocks
i3lock-2.10-x86_64-1_slonly.txz a simple screen locker
i3minator-0.0.4-x86_64-1_slonly.txz Simple workspace manager for i3
i3pystatus-3.35-x86_64-1_slonly.txz replacement for i3status
i3situation-1.0.5-x86_64-1_slonly.txz Python i3status
i3status-2.11-x86_64-1_slonly.txz status line generator for i3bar and xmobar
i8kutils-1.42-x86_64-1_slonly.txz utilities for Dell laptops
iTest-1.4.2_PREVIEW4-x86_64-1_slonly.txz computer-based tests software
iat-0.1.7-x86_64-1_slonly.txz iso9660 analyzer tool
ibam-0.5.2-x86_64-1_slonly.txz Intelligent BAttery Monitor
ibus-1.5.16-x86_64-1_slonly.txz Intelligent Input Bus for Linux
Advertisement
Advertisement