/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/GY94.mdl
|
text/plain
|
root:root
|
0o644
|
7.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94GY94xREV_PARRIS_syn3.mdl
|
text/plain
|
root:root
|
0o644
|
8.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREV.mdl
|
text/plain
|
root:root
|
0o644
|
4.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate.mdl
|
text/plain
|
root:root
|
0o644
|
3.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate_Multirate.mdl
|
text/plain
|
root:root
|
0o644
|
4.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M1.def
|
text/plain
|
root:root
|
0o644
|
327 bytes
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M2.def
|
text/plain
|
root:root
|
0o644
|
490 bytes
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M3.def
|
text/plain
|
root:root
|
0o644
|
558 bytes
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_syn3.def
|
text/plain
|
root:root
|
0o644
|
758 bytes
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_synvar.def
|
text/plain
|
root:root
|
0o644
|
611 bytes
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGenerator.bf
|
text/plain
|
root:root
|
0o644
|
5.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGeneratorNoPS.bf
|
text/plain
|
root:root
|
0o644
|
3.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma1.def
|
text/plain
|
root:root
|
0o644
|
532 bytes
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2+Inv.def
|
text/plain
|
root:root
|
0o644
|
929 bytes
|
/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2.def
|
text/plain
|
root:root
|
0o644
|
521 bytes
|
/usr/share/hyphy/TemplateBatchFiles/454.bf
|
text/plain
|
root:root
|
0o644
|
14.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/AAModelComparison.bf
|
text/x-c
|
root:root
|
0o644
|
5.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/AddABias.ibf
|
text/plain
|
root:root
|
0o644
|
8.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/AnalyzeCodonData.bf
|
text/x-c
|
root:root
|
0o644
|
1.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/AnalyzeCodonDataMPI.bf
|
text/x-c
|
root:root
|
0o644
|
1.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/AnalyzeDiNucData.bf
|
text/x-c
|
root:root
|
0o644
|
661 bytes
|
/usr/share/hyphy/TemplateBatchFiles/AnalyzeNucDataFreq.bf
|
text/x-c
|
root:root
|
0o644
|
933 bytes
|
/usr/share/hyphy/TemplateBatchFiles/AnalyzeNucDataFreq2.bf
|
text/x-c
|
root:root
|
0o644
|
1.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/AnalyzeNucProtData.bf
|
text/plain
|
root:root
|
0o644
|
868 bytes
|
/usr/share/hyphy/TemplateBatchFiles/AnalyzeNucProtData2.bf
|
text/x-c
|
root:root
|
0o644
|
2.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/BGM.bf
|
text/plain
|
root:root
|
0o644
|
7.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/BS2007.bf
|
text/plain
|
root:root
|
0o644
|
9.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/BUSTED-SRV.bf
|
text/plain
|
root:root
|
0o644
|
24.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/BUSTED.bf
|
text/plain
|
root:root
|
0o644
|
22.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/BivariateCodonRateAnalysis.bf
|
text/plain
|
root:root
|
0o644
|
3.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/BranchClassDNDS.bf
|
text/plain
|
root:root
|
0o644
|
11.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/BranchSiteREL.bf
|
text/plain
|
root:root
|
0o644
|
38.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/BranchSiteRELMultiModel.bf
|
text/plain
|
root:root
|
0o644
|
20.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/BranchSwap.bf
|
text/x-c
|
root:root
|
0o644
|
9.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/CleanGaps.bf
|
text/plain
|
root:root
|
0o644
|
3.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/CleanStopCodons.bf
|
text/plain
|
root:root
|
0o644
|
5.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/ClusterAnalysis.bf
|
text/x-c
|
root:root
|
0o644
|
10.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/ClusterByDistanceRange.bf
|
text/plain
|
root:root
|
0o644
|
15.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/CodonBivariateRateProcessor.bf
|
text/plain
|
root:root
|
0o644
|
11.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/CodonModelCompare.bf
|
text/plain
|
root:root
|
0o644
|
25.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/CodonToProtein.bf
|
text/plain
|
root:root
|
0o644
|
4.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/CodonUsageBias.bf
|
text/x-c
|
root:root
|
0o644
|
17.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/CompareSelectivePressure.bf
|
text/x-c
|
root:root
|
0o644
|
26.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/CompareSelectivePressureIVL.bf
|
text/x-c
|
root:root
|
0o644
|
27.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/ConvertDataFile.bf
|
text/plain
|
root:root
|
0o644
|
2.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/DatedTipsMolecularClock.bf
|
text/plain
|
root:root
|
0o644
|
16.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/DirectionalREL.bf
|
text/x-c
|
root:root
|
0o644
|
16.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/DirectionalREL_MF.bf
|
text/x-c
|
root:root
|
0o644
|
14.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/DistanceMatrix.bf
|
text/plain
|
root:root
|
0o644
|
7.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/DistanceMatrix_Splits.bf
|
text/plain
|
root:root
|
0o644
|
5.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/Distances/CodonTools.def
|
text/x-c
|
root:root
|
0o644
|
303 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/CodonTools2.def
|
text/x-c
|
root:root
|
0o644
|
639 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/CodonToolsMain.def
|
text/plain
|
root:root
|
0o644
|
9.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/JC69
|
text/plain
|
root:root
|
0o644
|
648 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/K2P
|
text/plain
|
root:root
|
0o644
|
1011 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/K2P_RV
|
text/plain
|
root:root
|
0o644
|
1.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/Modified_Nei_Gojobori
|
text/plain
|
root:root
|
0o644
|
3.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/Nei_Gojobori
|
text/plain
|
root:root
|
0o644
|
3.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/PC
|
text/plain
|
root:root
|
0o644
|
530 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/PC_MH
|
text/plain
|
root:root
|
0o644
|
663 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/PC_RV
|
text/plain
|
root:root
|
0o644
|
797 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/T3P
|
text/plain
|
root:root
|
0o644
|
1.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/TN84
|
text/plain
|
root:root
|
0o644
|
1.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/TN93
|
text/plain
|
root:root
|
0o644
|
2.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/TN93_RV
|
text/plain
|
root:root
|
0o644
|
1.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ
|
text/plain
|
root:root
|
0o644
|
779 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ_FR
|
text/plain
|
root:root
|
0o644
|
2.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance
|
text/plain
|
root:root
|
0o644
|
478 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_aa
|
text/plain
|
root:root
|
0o644
|
564 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_binary
|
text/plain
|
root:root
|
0o644
|
426 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_codon
|
text/plain
|
root:root
|
0o644
|
1.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/FUBAR.bf
|
text/plain
|
root:root
|
0o644
|
12.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_1.bf
|
text/plain
|
root:root
|
0o644
|
888 bytes
|
/usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_2.bf
|
text/plain
|
root:root
|
0o644
|
5.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_3.bf
|
text/plain
|
root:root
|
0o644
|
9.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_4.bf
|
text/plain
|
root:root
|
0o644
|
4.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_5.bf
|
text/plain
|
root:root
|
0o644
|
5.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_tools.ibf
|
text/plain
|
root:root
|
0o644
|
13.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/F_ST.bf
|
text/plain
|
root:root
|
0o644
|
19.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/FitnessAAModels.bf
|
text/plain
|
root:root
|
0o644
|
9.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/GADatedClock.bf
|
text/x-c
|
root:root
|
0o644
|
18.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/GADatedClock.ibf
|
text/plain
|
root:root
|
0o644
|
7.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/GADatedClockProcessor.bf
|
text/plain
|
root:root
|
0o644
|
10.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/GADatedClockProcessorM.bf
|
text/plain
|
root:root
|
0o644
|
12.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/GARD.bf
|
text/plain
|
root:root
|
0o644
|
34.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/GARDProcessor.bf
|
text/plain
|
root:root
|
0o644
|
18.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/GARD_GA_CHC.ibf
|
text/plain
|
root:root
|
0o644
|
11.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/GARecomb.bf
|
text/plain
|
root:root
|
0o644
|
21.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/GA_CHC.ibf
|
text/plain
|
root:root
|
0o644
|
11.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/GA_CHC_Binary.ibf
|
text/plain
|
root:root
|
0o644
|
14.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/GA_CHC_kernel.ibf
|
text/plain
|
root:root
|
0o644
|
10.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/GUI/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/GUI/crayolaColors.def
|
text/plain
|
root:root
|
0o644
|
17 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Gateaux.bf
|
text/plain
|
root:root
|
0o644
|
8.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/Gateaux2.bf
|
text/plain
|
root:root
|
0o644
|
7.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/GateauxMR.bf
|
text/plain
|
root:root
|
0o644
|
7.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/KHTest.bf
|
text/plain
|
root:root
|
0o644
|
7.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/Kernel_PCA.bf
|
text/plain
|
root:root
|
0o644
|
1.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/Kernel_k_means.bf
|
text/plain
|
root:root
|
0o644
|
5.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/Kernel_support.ibf
|
text/plain
|
root:root
|
0o644
|
3.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/LHT.bf
|
text/plain
|
root:root
|
0o644
|
6.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/LRTRecombTest.bf
|
text/plain
|
root:root
|
0o644
|
7.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/LZ_Complexity.bf
|
text/plain
|
root:root
|
0o644
|
2.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/LocalBranchSiteTest.bf
|
text/plain
|
root:root
|
0o644
|
11.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/LocalMolClock.bf
|
text/x-c
|
root:root
|
0o644
|
5.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/MEDS.bf
|
text/plain
|
root:root
|
0o644
|
18.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/MEME_mf.bf
|
text/plain
|
root:root
|
0o644
|
27.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/MFPSreader.def
|
text/plain
|
root:root
|
0o644
|
2.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/MFPositiveSelection.bf
|
text/plain
|
root:root
|
0o644
|
29.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/MFPositiveSelectionPooled.bf
|
text/plain
|
root:root
|
0o644
|
23.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/MGvsGY.bf
|
text/plain
|
root:root
|
0o644
|
17.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/MaxChi2.bf
|
text/plain
|
root:root
|
0o644
|
5.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/MergeSequences.bf
|
text/plain
|
root:root
|
0o644
|
958 bytes
|
/usr/share/hyphy/TemplateBatchFiles/MergeSites.bf
|
text/plain
|
root:root
|
0o644
|
966 bytes
|
/usr/share/hyphy/TemplateBatchFiles/ModelSelectorAAProcessor.bf
|
text/plain
|
root:root
|
0o644
|
10.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/ModelSelectorBranch.bf
|
text/plain
|
root:root
|
0o644
|
19.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/ModelSelectorCodon.bf
|
text/plain
|
root:root
|
0o644
|
26.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/ModelSelectorCodon.ibf
|
text/plain
|
root:root
|
0o644
|
1.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/ModelSelectorCodonProcessor.bf
|
text/plain
|
root:root
|
0o644
|
25.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/ModelSelectorRNA.bf
|
text/plain
|
root:root
|
0o644
|
14.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/ModelSelectorRNA_1.bf
|
text/plain
|
root:root
|
0o644
|
18.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/ModelTest.bf
|
text/plain
|
root:root
|
0o644
|
19.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/MolClockAllRoots.bf
|
text/x-c
|
root:root
|
0o644
|
5.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/MolecularClock.bf
|
text/x-c
|
root:root
|
0o644
|
3.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/NeighborJoining.bf
|
text/x-c
|
root:root
|
0o644
|
4.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/NielsenYang.bf
|
text/x-c
|
root:root
|
0o644
|
31.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/NucModelCompare.bf
|
text/plain
|
root:root
|
0o644
|
24.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/PARRIS.bf
|
text/x-c
|
root:root
|
0o644
|
41.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/PairwiseRelativeRate.bf
|
text/x-c
|
root:root
|
0o644
|
7.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/PairwiseRelativeRatio.bf
|
text/x-c
|
root:root
|
0o644
|
9.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/PairwiseSiteDiversity.bf
|
text/x-c
|
root:root
|
0o644
|
5.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/PartitionDataFile.bf
|
text/plain
|
root:root
|
0o644
|
1.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/PartitionRateComparison.bf
|
text/x-c
|
root:root
|
0o644
|
20.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/Phylohandbook.bf
|
text/plain
|
root:root
|
0o644
|
99 bytes
|
/usr/share/hyphy/TemplateBatchFiles/Plato.bf
|
text/plain
|
root:root
|
0o644
|
9.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/PositiveSelectionLI.bf
|
text/plain
|
root:root
|
0o644
|
55.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/QuickSelectionDetection.bf
|
text/x-c
|
root:root
|
0o644
|
63.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/QuickSelectionDetectionMF.bf
|
text/plain
|
root:root
|
0o644
|
10.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/RELAX.bf
|
text/plain
|
root:root
|
0o644
|
29.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/RateClassCounter.bf
|
text/plain
|
root:root
|
0o644
|
21.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/ReduceDataSetMatrix.bf
|
text/x-c
|
root:root
|
0o644
|
8.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/RelativeRate.bf
|
text/x-c
|
root:root
|
0o644
|
3.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/RelativeRateL.bf
|
text/x-c
|
root:root
|
0o644
|
7.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/RelativeRatio.bf
|
text/x-c
|
root:root
|
0o644
|
5.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/SGASimProcessor.bf
|
text/x-c
|
root:root
|
0o644
|
12.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/SGEmulator.bf
|
text/x-c
|
root:root
|
0o644
|
22.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/SGEmulator_MF.bf
|
text/x-c
|
root:root
|
0o644
|
19.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/SGIvL.bf
|
text/x-c
|
root:root
|
0o644
|
18.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/SSRatesTest.bf
|
text/plain
|
root:root
|
0o644
|
5.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/SampleProcessor.bf
|
text/plain
|
root:root
|
0o644
|
36.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/Samplers/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/Samplers/lhc.bf
|
text/x-c
|
root:root
|
0o644
|
6.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/Samplers/lhc_supp.ibf
|
text/plain
|
root:root
|
0o644
|
1.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/Samplers/sir.bf
|
text/plain
|
root:root
|
0o644
|
3.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/Samplers/srs.ibf
|
text/plain
|
root:root
|
0o644
|
8.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/SandNSAmbigs.bf
|
text/plain
|
root:root
|
0o644
|
9.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/SelectionLRT.bf
|
text/plain
|
root:root
|
0o644
|
10.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/SeqAlignShared.ibf
|
text/plain
|
root:root
|
0o644
|
83.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/SeqAlignment.bf
|
text/x-c
|
root:root
|
0o644
|
1.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentCodon.bf
|
text/plain
|
root:root
|
0o644
|
169 bytes
|
/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentCodonShared.ibf
|
text/plain
|
root:root
|
0o644
|
7.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentNuc.bf
|
text/plain
|
root:root
|
0o644
|
18.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentNucShared.ibf
|
text/plain
|
root:root
|
0o644
|
7.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentProt.bf
|
text/x-c
|
root:root
|
0o644
|
5.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentTop75.bf
|
text/plain
|
root:root
|
0o644
|
50.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/SequentialAddition.bf
|
text/x-c
|
root:root
|
0o644
|
5.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/SequentialAddition.ibf
|
text/x-c
|
root:root
|
0o644
|
15.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/SimilarityPlot.bf
|
text/plain
|
root:root
|
0o644
|
4.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/SimmondsAI.bf
|
text/plain
|
root:root
|
0o644
|
8.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/SimpleMutationCounter.bf
|
text/plain
|
root:root
|
0o644
|
5.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/SingleBreakpointRecomb-2.bf
|
text/plain
|
root:root
|
0o644
|
17.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/SingleBreakpointRecomb.bf
|
text/plain
|
root:root
|
0o644
|
28.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/SiteRates.bf
|
text/plain
|
root:root
|
0o644
|
5.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/SiteRates2.bf
|
text/plain
|
root:root
|
0o644
|
7.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/SlatkinMaddison-2parts.bf
|
text/plain
|
root:root
|
0o644
|
8.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/SlatkinMaddison.bf
|
text/plain
|
root:root
|
0o644
|
9.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/SlidingNucWindow.bf
|
text/x-c
|
root:root
|
0o644
|
2.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/SlidingWindowAnalysis.bf
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/SplitSequencesByPattern.bf
|
text/plain
|
root:root
|
0o644
|
1.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/StarDecomposition.bf
|
text/x-c
|
root:root
|
0o644
|
13.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/StrandGRMTest.bf
|
text/plain
|
root:root
|
0o644
|
4.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/StripStopCodons.bf
|
text/x-c
|
root:root
|
0o644
|
2.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/SubtreeSelectionComparison.bf
|
text/x-c
|
root:root
|
0o644
|
9.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/190
|
text/plain
|
root:root
|
0o644
|
1.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/BranchSiteTemplate.mdl
|
text/plain
|
root:root
|
0o644
|
6.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/CF3x4.bf
|
text/plain
|
root:root
|
0o644
|
2.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA.mdl
|
text/x-c
|
root:root
|
0o644
|
3.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA_empirical.mdl
|
text/x-c
|
root:root
|
0o644
|
4.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff.mdl
|
text/x-c
|
root:root
|
0o644
|
33.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff_F.mdl
|
text/x-c
|
root:root
|
0o644
|
33.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Default
|
text/plain
|
root:root
|
0o644
|
867 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F+omega.mdl
|
text/plain
|
root:root
|
0o644
|
4.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F.mdl
|
text/plain
|
root:root
|
0o644
|
4.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F3x4.mdl
|
text/plain
|
root:root
|
0o644
|
4.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+MLFREQS.mdl
|
text/x-c
|
root:root
|
0o644
|
4.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM.mdl
|
text/plain
|
root:root
|
0o644
|
4.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EIAA.mdl
|
text/x-c
|
root:root
|
0o644
|
1.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EIAAFreq.mdl
|
text/x-c
|
root:root
|
0o644
|
2.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EX.dat
|
text/plain
|
root:root
|
0o644
|
2.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EX.mdl
|
text/x-c
|
root:root
|
0o644
|
33.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/BLOSUM62
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/Dayhoff
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/H5N1
|
text/plain
|
root:root
|
0o644
|
7.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVBetween
|
text/plain
|
root:root
|
0o644
|
3.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVWithin
|
text/plain
|
root:root
|
0o644
|
3.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/IAV
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/JTT
|
text/plain
|
root:root
|
0o644
|
7.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LCAP
|
text/plain
|
root:root
|
0o644
|
35.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LG
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/MtArt
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/VT
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/WAG
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/cpREV
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/modellist.ibf
|
text/plain
|
root:root
|
0o644
|
9.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtMAM
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtREV24
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/rtREV
|
text/plain
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECM
|
text/plain
|
root:root
|
0o644
|
37.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECMu
|
text/plain
|
root:root
|
0o644
|
37.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F81.mdl
|
text/x-c
|
root:root
|
0o644
|
1.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F81_binary.mdl
|
text/x-c
|
root:root
|
0o644
|
1.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F84.mdl
|
text/x-c
|
root:root
|
0o644
|
2.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F84P.mdl
|
text/plain
|
root:root
|
0o644
|
3.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GRM.mdl
|
text/x-c
|
root:root
|
0o644
|
1.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94.ibf
|
text/plain
|
root:root
|
0o644
|
4.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94.mdl
|
text/x-c
|
root:root
|
0o644
|
1.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94customF3x4.mdl
|
text/plain
|
root:root
|
0o644
|
7.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94w9.mdl
|
text/x-c
|
root:root
|
0o644
|
2.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween+F.mdl
|
text/x-c
|
root:root
|
0o644
|
355 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.ibf
|
text/x-c
|
root:root
|
0o644
|
3.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.mdl
|
text/x-c
|
root:root
|
0o644
|
597 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin+F.mdl
|
text/x-c
|
root:root
|
0o644
|
351 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.ibf
|
text/x-c
|
root:root
|
0o644
|
4.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.mdl
|
text/x-c
|
root:root
|
0o644
|
490 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HKY85.mdl
|
text/x-c
|
root:root
|
0o644
|
1.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/JC69.mdl
|
text/x-c
|
root:root
|
0o644
|
1.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/JC69_binary.mdl
|
text/x-c
|
root:root
|
0o644
|
1.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Jones.mdl
|
text/x-c
|
root:root
|
0o644
|
34.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Jones_F.mdl
|
text/x-c
|
root:root
|
0o644
|
33.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/K2P.mdl
|
text/x-c
|
root:root
|
0o644
|
1.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/K3ST.mdl
|
text/x-c
|
root:root
|
0o644
|
1.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/LCAP.mdl
|
text/plain
|
root:root
|
0o644
|
9.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MEC.mdl
|
text/plain
|
root:root
|
0o644
|
7.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94.mdl
|
text/x-c
|
root:root
|
0o644
|
5.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94custom.mdl
|
text/plain
|
root:root
|
0o644
|
9.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customCF3x4.mdl
|
text/plain
|
root:root
|
0o644
|
9.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customF1x4.mdl
|
text/plain
|
root:root
|
0o644
|
9.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customFreqs.mdl
|
text/plain
|
root:root
|
0o644
|
8.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAA.mdl
|
text/x-c
|
root:root
|
0o644
|
5.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61.mdl
|
text/x-c
|
root:root
|
0o644
|
5.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61multiple.mdl
|
text/x-c
|
root:root
|
0o644
|
5.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAFreqs.mdl
|
text/x-c
|
root:root
|
0o644
|
5.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAUserFreqs.mdl
|
text/x-c
|
root:root
|
0o644
|
5.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wEX.mdl
|
text/x-c
|
root:root
|
0o644
|
5.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94with9freqs.mdl
|
text/x-c
|
root:root
|
0o644
|
6.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94x2.mdl
|
text/plain
|
root:root
|
0o644
|
10.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGFreqsEstimator.ibf
|
text/plain
|
root:root
|
0o644
|
1.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGwAA.ibf
|
text/plain
|
root:root
|
0o644
|
3.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGwEX.ibf
|
text/plain
|
root:root
|
0o644
|
2.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/NRM+Freqs.mdl
|
text/plain
|
root:root
|
0o644
|
1.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/NRM.mdl
|
text/plain
|
root:root
|
0o644
|
1.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/PCH
|
text/plain
|
root:root
|
0o644
|
867 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16.mdl
|
text/x-c
|
root:root
|
0o644
|
5.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16A
|
text/plain
|
root:root
|
0o644
|
1.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16SvH.mdl
|
text/x-c
|
root:root
|
0o644
|
3.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAEqualInput
|
text/plain
|
root:root
|
0o644
|
549 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAF81
|
text/plain
|
root:root
|
0o644
|
916 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAMuse95.mdl
|
text/x-c
|
root:root
|
0o644
|
3.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAREV
|
text/plain
|
root:root
|
0o644
|
809 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAREV_1
|
text/plain
|
root:root
|
0o644
|
785 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/S4
|
text/plain
|
root:root
|
0o644
|
866 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/STGRM.mdl
|
text/x-c
|
root:root
|
0o644
|
1.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/TrN.mdl
|
text/x-c
|
root:root
|
0o644
|
1.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/UniversalCode.def
|
text/plain
|
root:root
|
0o644
|
5.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/WAG.mdl
|
text/x-c
|
root:root
|
0o644
|
27.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/WAG_F.mdl
|
text/x-c
|
root:root
|
0o644
|
27.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Yang2000Distributions.def
|
text/plain
|
root:root
|
0o644
|
10.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/chooseGeneticCode.def
|
text/plain
|
root:root
|
0o644
|
16.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/custm4x4.mdl
|
text/x-c
|
root:root
|
0o644
|
9.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/defineGamma.mdl
|
text/plain
|
root:root
|
0o644
|
10.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/defineHM.mdl
|
text/plain
|
root:root
|
0o644
|
10.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/fitness.mdl
|
text/plain
|
root:root
|
0o644
|
1.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters.mdl
|
text/plain
|
root:root
|
0o644
|
800 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters2.mdl
|
text/plain
|
root:root
|
0o644
|
546 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters3.mdl
|
text/plain
|
root:root
|
0o644
|
659 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters4.mdl
|
text/plain
|
root:root
|
0o644
|
1.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters5.mdl
|
text/plain
|
root:root
|
0o644
|
660 bytes
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/models.lst
|
text/plain
|
root:root
|
0o644
|
10.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtMAM.mdl
|
text/x-c
|
root:root
|
0o644
|
16.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtMAM_F.mdl
|
text/x-c
|
root:root
|
0o644
|
15.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV.mdl
|
text/x-c
|
root:root
|
0o644
|
1.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24.mdl
|
text/x-c
|
root:root
|
0o644
|
27.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24_F.mdl
|
text/x-c
|
root:root
|
0o644
|
27.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/reducedREV.mdl
|
text/x-c
|
root:root
|
0o644
|
3.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/rtREV.mdl
|
text/x-c
|
root:root
|
0o644
|
28.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TemplateModels/rtREV_F.mdl
|
text/x-c
|
root:root
|
0o644
|
27.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/TestBranchDNDS.bf
|
text/plain
|
root:root
|
0o644
|
12.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/TestClade.bf
|
text/plain
|
root:root
|
0o644
|
23.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/TestCladeMeans.bf
|
text/plain
|
root:root
|
0o644
|
10.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/TopologySearch.bf
|
text/plain
|
root:root
|
0o644
|
10.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/TopologySearchConstrained.bf
|
text/plain
|
root:root
|
0o644
|
8.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/TreeCorrelationCoefficients.bf
|
text/plain
|
root:root
|
0o644
|
7.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/TreeTools.ibf
|
text/plain
|
root:root
|
0o644
|
20.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/UpperBound.bf
|
text/plain
|
root:root
|
0o644
|
1.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/Utility/AncestralMapper.bf
|
text/plain
|
root:root
|
0o644
|
23.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/BranchLengthFitters.bf
|
text/plain
|
root:root
|
0o644
|
2.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/CoalescentPostProcessor.bf
|
text/plain
|
root:root
|
0o644
|
12.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/CodonTools.bf
|
text/plain
|
root:root
|
0o644
|
1.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/DBTools.ibf
|
text/plain
|
root:root
|
0o644
|
4.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/DescriptiveStatistics.bf
|
text/plain
|
root:root
|
0o644
|
2.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/GrabBag.bf
|
text/plain
|
root:root
|
0o644
|
22.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/HXB2Mapper.bf
|
text/plain
|
root:root
|
0o644
|
20.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/LocalMGREV.bf
|
text/plain
|
root:root
|
0o644
|
3.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/LocalMGREVMLFreqs.bf
|
text/plain
|
root:root
|
0o644
|
5.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/MPITools.bf
|
text/plain
|
root:root
|
0o644
|
2.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/NJ.bf
|
text/plain
|
root:root
|
0o644
|
6.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/PS_Plotters.bf
|
text/plain
|
root:root
|
0o644
|
50.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/PostScript.bf
|
text/plain
|
root:root
|
0o644
|
11.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/ProbabilityDistributions.bf
|
text/plain
|
root:root
|
0o644
|
1.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/ReadDelimitedFiles.bf
|
text/plain
|
root:root
|
0o644
|
11.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/TreeFunctions.bf
|
text/plain
|
root:root
|
0o644
|
1.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/Utility/WriteDelimitedFiles.bf
|
text/plain
|
root:root
|
0o644
|
1.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/WANC.bf
|
text/plain
|
root:root
|
0o644
|
9.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/WebUpdate.bf
|
text/plain
|
root:root
|
0o644
|
5.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/YangNielsenBranchSite2005.bf
|
text/plain
|
root:root
|
0o644
|
15.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/_BMS_Aux.ibf
|
text/plain
|
root:root
|
0o644
|
4.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/_CMS_Aux.ibf
|
text/plain
|
root:root
|
0o644
|
8.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/_MFReader_.ibf
|
text/plain
|
root:root
|
0o644
|
6.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/_MSCOneStep.ibf
|
text/plain
|
root:root
|
0o644
|
1.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/_tipDater.ibf
|
text/plain
|
root:root
|
0o644
|
1.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/bayesgraph.ibf
|
text/plain
|
root:root
|
0o644
|
20.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/binomial.ibf
|
text/plain
|
root:root
|
0o644
|
1.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/branchSwappingFunctions.bf
|
text/plain
|
root:root
|
0o644
|
8.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/categoryEcho.bf
|
text/plain
|
root:root
|
0o644
|
4.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/chooseDistanceFormula.def
|
text/plain
|
root:root
|
0o644
|
3.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/dNdSBivariateRateAnalysis.bf
|
text/plain
|
root:root
|
0o644
|
21.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/dNdSBivariateRateAnalysis_CompareDS.bf
|
text/plain
|
root:root
|
0o644
|
21.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/dNdSDistributionComparison.bf
|
text/x-c
|
root:root
|
0o644
|
28.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/dNdSDistributionComparisonPartitions.bf
|
text/x-c
|
root:root
|
0o644
|
26.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/dNdSRateAnalysis.bf
|
text/plain
|
root:root
|
0o644
|
26.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/dNdSRateAnalysis_MF.bf
|
text/x-c
|
root:root
|
0o644
|
21.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/dNdSResultProcessor.bf
|
text/plain
|
root:root
|
0o644
|
37.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/dSdNTreeTools.ibf
|
text/plain
|
root:root
|
0o644
|
2.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/distanceMethodNPBootstrap.bf
|
text/plain
|
root:root
|
0o644
|
9.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/distanceRMethodNPBootstrap.bf
|
text/plain
|
root:root
|
0o644
|
7.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/doNNISwap.bf
|
text/plain
|
root:root
|
0o644
|
3.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/doSPRSwap.bf
|
text/plain
|
root:root
|
0o644
|
2.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/files.lst
|
text/plain
|
root:root
|
0o644
|
13.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/globalChecker.ibf
|
text/plain
|
root:root
|
0o644
|
511 bytes
|
/usr/share/hyphy/TemplateBatchFiles/heuristicMethodNPBootstrap.bf
|
text/plain
|
root:root
|
0o644
|
5.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/last.date
|
text/plain
|
root:root
|
0o644
|
15 bytes
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/IOFunctions.bf
|
text/plain
|
root:root
|
0o644
|
6.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/UtilityFunctions.bf
|
text/plain
|
root:root
|
0o644
|
4.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/DNA/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/DNA.bf
|
text/plain
|
root:root
|
0o644
|
2.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/DNA/GTR.bf
|
text/plain
|
root:root
|
0o644
|
2.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/codon/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/codon.bf
|
text/plain
|
root:root
|
0o644
|
3.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/codon/MG_REV.bf
|
text/plain
|
root:root
|
0o644
|
6.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/frequencies.bf
|
text/plain
|
root:root
|
0o644
|
10.1 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/model_functions.bf
|
text/plain
|
root:root
|
0o644
|
7.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/parameters.bf
|
text/plain
|
root:root
|
0o644
|
9.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/rate_variation.bf
|
text/plain
|
root:root
|
0o644
|
4.6 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/models/terms.bf
|
text/plain
|
root:root
|
0o644
|
1.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/tasks/
|
|
root:root
|
0o755
|
|
/usr/share/hyphy/TemplateBatchFiles/lib2014/tasks/estimators.bf
|
text/plain
|
root:root
|
0o644
|
14.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/molclockBootstrap.bf
|
text/plain
|
root:root
|
0o644
|
5.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/pairwiseDistanceEstimator.ibf
|
text/plain
|
root:root
|
0o644
|
10.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/pairwiseDistanceEstimatorCounter.ibf
|
text/plain
|
root:root
|
0o644
|
180 bytes
|
/usr/share/hyphy/TemplateBatchFiles/partitionSequences.ibf
|
text/plain
|
root:root
|
0o644
|
2.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/post_ancestors.bf
|
text/plain
|
root:root
|
0o644
|
661 bytes
|
/usr/share/hyphy/TemplateBatchFiles/post_counting.bf
|
text/x-c
|
root:root
|
0o644
|
1.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/post_covariance.bf
|
text/plain
|
root:root
|
0o644
|
1.5 KB
|
/usr/share/hyphy/TemplateBatchFiles/post_dNdS.bf
|
text/x-c
|
root:root
|
0o644
|
2.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/post_lfprofile.bf
|
text/plain
|
root:root
|
0o644
|
352 bytes
|
/usr/share/hyphy/TemplateBatchFiles/post_npbs.bf
|
text/plain
|
root:root
|
0o644
|
359 bytes
|
/usr/share/hyphy/TemplateBatchFiles/post_pbs.bf
|
text/plain
|
root:root
|
0o644
|
324 bytes
|
/usr/share/hyphy/TemplateBatchFiles/post_sampler.bf
|
text/plain
|
root:root
|
0o644
|
4.7 KB
|
/usr/share/hyphy/TemplateBatchFiles/post_saveResults.bf
|
text/plain
|
root:root
|
0o644
|
1.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/post_sns.bf
|
text/plain
|
root:root
|
0o644
|
2.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/post_variance.bf
|
text/plain
|
root:root
|
0o644
|
3.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/post_viewResults.bf
|
text/plain
|
root:root
|
0o644
|
1.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/postprocessors.lst
|
text/plain
|
root:root
|
0o644
|
880 bytes
|
/usr/share/hyphy/TemplateBatchFiles/qndhelper1.ibf
|
text/plain
|
root:root
|
0o644
|
22.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/qndhelper1_mf.ibf
|
text/x-c
|
root:root
|
0o644
|
7.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/qndhelper2.ibf
|
text/plain
|
root:root
|
0o644
|
13.2 KB
|
/usr/share/hyphy/TemplateBatchFiles/qndhelper2_mf.ibf
|
text/plain
|
root:root
|
0o644
|
13.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/qndhelper3.ibf
|
text/plain
|
root:root
|
0o644
|
4.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/qndhelper4.ibf
|
text/plain
|
root:root
|
0o644
|
4.3 KB
|
/usr/share/hyphy/TemplateBatchFiles/queryTree.bf
|
text/plain
|
root:root
|
0o644
|
2.8 KB
|
/usr/share/hyphy/TemplateBatchFiles/readIndexFile.bf
|
text/plain
|
root:root
|
0o644
|
447 bytes
|
/usr/share/hyphy/TemplateBatchFiles/relrateBootstrap.bf
|
text/plain
|
root:root
|
0o644
|
9.9 KB
|
/usr/share/hyphy/TemplateBatchFiles/relrateBootstrapL.bf
|
text/plain
|
root:root
|
0o644
|
7.0 KB
|
/usr/share/hyphy/TemplateBatchFiles/relratioBootstrap.bf
|
text/plain
|
root:root
|
0o644
|
4.4 KB
|
/usr/share/hyphy/TemplateBatchFiles/selectModelParameters.bf
|
text/plain
|
root:root
|
0o644
|
438 bytes
|
/usr/share/hyphy/TemplateBatchFiles/simpleBootstrap.bf
|
text/x-c
|
root:root
|
0o644
|
9.7 KB
|