Files in lukejharmon/netphy

What the package does (short line)

.Rbuildignore

.gitignore

.travis.yml

DESCRIPTION

NAMESPACE

R/#simPhyloNetwork.R#

R/MatrixExp.eig.R R/branchLike.R R/fitPhyloNetwork.R R/internals.R R/logspace_add.R R/logspace_sum.R R/simPhyloNetwork.R README.md

_config.yml

asymtrans_jul26

examples/examples.R figs.R

figs.R~

figs_boxconstrain.R

figs_boxconstrain.R~

fixed_n_depth_sims/fixed_n_time_err

fixed_n_depth_sims/fixed_n_time_simulations_and_fitting.R

fixed_n_depth_sims/fixed_n_time_simulations_and_fitting.R~

fixed_n_depth_sims/large_nets/net100_large.csv

fixed_n_depth_sims/large_nets/net10_large.csv

fixed_n_depth_sims/large_nets/net11_large.csv

fixed_n_depth_sims/large_nets/net12_large.csv

fixed_n_depth_sims/large_nets/net13_large.csv

fixed_n_depth_sims/large_nets/net14_large.csv

fixed_n_depth_sims/large_nets/net15_large.csv

fixed_n_depth_sims/large_nets/net16_large.csv

fixed_n_depth_sims/large_nets/net17_large.csv

fixed_n_depth_sims/large_nets/net18_large.csv

fixed_n_depth_sims/large_nets/net19_large.csv

fixed_n_depth_sims/large_nets/net1_large.csv

fixed_n_depth_sims/large_nets/net20_large.csv

fixed_n_depth_sims/large_nets/net21_large.csv

fixed_n_depth_sims/large_nets/net22_large.csv

fixed_n_depth_sims/large_nets/net23_large.csv

fixed_n_depth_sims/large_nets/net24_large.csv

fixed_n_depth_sims/large_nets/net25_large.csv

fixed_n_depth_sims/large_nets/net26_large.csv

fixed_n_depth_sims/large_nets/net27_large.csv

fixed_n_depth_sims/large_nets/net28_large.csv

fixed_n_depth_sims/large_nets/net29_large.csv

fixed_n_depth_sims/large_nets/net2_large.csv

fixed_n_depth_sims/large_nets/net30_large.csv

fixed_n_depth_sims/large_nets/net31_large.csv

fixed_n_depth_sims/large_nets/net32_large.csv

fixed_n_depth_sims/large_nets/net33_large.csv

fixed_n_depth_sims/large_nets/net34_large.csv

fixed_n_depth_sims/large_nets/net35_large.csv

fixed_n_depth_sims/large_nets/net36_large.csv

fixed_n_depth_sims/large_nets/net37_large.csv

fixed_n_depth_sims/large_nets/net38_large.csv

fixed_n_depth_sims/large_nets/net39_large.csv

fixed_n_depth_sims/large_nets/net3_large.csv

fixed_n_depth_sims/large_nets/net40_large.csv

fixed_n_depth_sims/large_nets/net41_large.csv

fixed_n_depth_sims/large_nets/net42_large.csv

fixed_n_depth_sims/large_nets/net43_large.csv

fixed_n_depth_sims/large_nets/net44_large.csv

fixed_n_depth_sims/large_nets/net45_large.csv

fixed_n_depth_sims/large_nets/net46_large.csv

fixed_n_depth_sims/large_nets/net47_large.csv

fixed_n_depth_sims/large_nets/net48_large.csv

fixed_n_depth_sims/large_nets/net49_large.csv

fixed_n_depth_sims/large_nets/net4_large.csv

fixed_n_depth_sims/large_nets/net50_large.csv

fixed_n_depth_sims/large_nets/net51_large.csv

fixed_n_depth_sims/large_nets/net52_large.csv

fixed_n_depth_sims/large_nets/net53_large.csv

fixed_n_depth_sims/large_nets/net54_large.csv

fixed_n_depth_sims/large_nets/net55_large.csv

fixed_n_depth_sims/large_nets/net56_large.csv

fixed_n_depth_sims/large_nets/net57_large.csv

fixed_n_depth_sims/large_nets/net58_large.csv

fixed_n_depth_sims/large_nets/net59_large.csv

fixed_n_depth_sims/large_nets/net5_large.csv

fixed_n_depth_sims/large_nets/net60_large.csv

fixed_n_depth_sims/large_nets/net61_large.csv

fixed_n_depth_sims/large_nets/net62_large.csv

fixed_n_depth_sims/large_nets/net63_large.csv

fixed_n_depth_sims/large_nets/net64_large.csv

fixed_n_depth_sims/large_nets/net65_large.csv

fixed_n_depth_sims/large_nets/net66_large.csv

fixed_n_depth_sims/large_nets/net67_large.csv

fixed_n_depth_sims/large_nets/net68_large.csv

fixed_n_depth_sims/large_nets/net69_large.csv

fixed_n_depth_sims/large_nets/net6_large.csv

fixed_n_depth_sims/large_nets/net70_large.csv

fixed_n_depth_sims/large_nets/net71_large.csv

fixed_n_depth_sims/large_nets/net72_large.csv

fixed_n_depth_sims/large_nets/net73_large.csv

fixed_n_depth_sims/large_nets/net74_large.csv

fixed_n_depth_sims/large_nets/net75_large.csv

fixed_n_depth_sims/large_nets/net76_large.csv

fixed_n_depth_sims/large_nets/net77_large.csv

fixed_n_depth_sims/large_nets/net78_large.csv

fixed_n_depth_sims/large_nets/net79_large.csv

fixed_n_depth_sims/large_nets/net7_large.csv

fixed_n_depth_sims/large_nets/net80_large.csv

fixed_n_depth_sims/large_nets/net81_large.csv

fixed_n_depth_sims/large_nets/net82_large.csv

fixed_n_depth_sims/large_nets/net83_large.csv

fixed_n_depth_sims/large_nets/net84_large.csv

fixed_n_depth_sims/large_nets/net85_large.csv

fixed_n_depth_sims/large_nets/net86_large.csv

fixed_n_depth_sims/large_nets/net87_large.csv

fixed_n_depth_sims/large_nets/net88_large.csv

fixed_n_depth_sims/large_nets/net89_large.csv

fixed_n_depth_sims/large_nets/net8_large.csv

fixed_n_depth_sims/large_nets/net90_large.csv

fixed_n_depth_sims/large_nets/net91_large.csv

fixed_n_depth_sims/large_nets/net92_large.csv

fixed_n_depth_sims/large_nets/net93_large.csv

fixed_n_depth_sims/large_nets/net94_large.csv

fixed_n_depth_sims/large_nets/net95_large.csv

fixed_n_depth_sims/large_nets/net96_large.csv

fixed_n_depth_sims/large_nets/net97_large.csv

fixed_n_depth_sims/large_nets/net98_large.csv

fixed_n_depth_sims/large_nets/net99_large.csv

fixed_n_depth_sims/large_nets/net9_large.csv

fixed_n_depth_sims/large_trees/tree100_large.txt

fixed_n_depth_sims/large_trees/tree10_large.txt

fixed_n_depth_sims/large_trees/tree11_large.txt

fixed_n_depth_sims/large_trees/tree12_large.txt

fixed_n_depth_sims/large_trees/tree13_large.txt

fixed_n_depth_sims/large_trees/tree14_large.txt

fixed_n_depth_sims/large_trees/tree15_large.txt

fixed_n_depth_sims/large_trees/tree16_large.txt

fixed_n_depth_sims/large_trees/tree17_large.txt

fixed_n_depth_sims/large_trees/tree18_large.txt

fixed_n_depth_sims/large_trees/tree19_large.txt

fixed_n_depth_sims/large_trees/tree1_large.txt

fixed_n_depth_sims/large_trees/tree20_large.txt

fixed_n_depth_sims/large_trees/tree21_large.txt

fixed_n_depth_sims/large_trees/tree22_large.txt

fixed_n_depth_sims/large_trees/tree23_large.txt

fixed_n_depth_sims/large_trees/tree24_large.txt

fixed_n_depth_sims/large_trees/tree25_large.txt

fixed_n_depth_sims/large_trees/tree26_large.txt

fixed_n_depth_sims/large_trees/tree27_large.txt

fixed_n_depth_sims/large_trees/tree28_large.txt

fixed_n_depth_sims/large_trees/tree29_large.txt

fixed_n_depth_sims/large_trees/tree2_large.txt

fixed_n_depth_sims/large_trees/tree30_large.txt

fixed_n_depth_sims/large_trees/tree31_large.txt

fixed_n_depth_sims/large_trees/tree32_large.txt

fixed_n_depth_sims/large_trees/tree33_large.txt

fixed_n_depth_sims/large_trees/tree34_large.txt

fixed_n_depth_sims/large_trees/tree35_large.txt

fixed_n_depth_sims/large_trees/tree36_large.txt

fixed_n_depth_sims/large_trees/tree37_large.txt

fixed_n_depth_sims/large_trees/tree38_large.txt

fixed_n_depth_sims/large_trees/tree39_large.txt

fixed_n_depth_sims/large_trees/tree3_large.txt

fixed_n_depth_sims/large_trees/tree40_large.txt

fixed_n_depth_sims/large_trees/tree41_large.txt

fixed_n_depth_sims/large_trees/tree42_large.txt

fixed_n_depth_sims/large_trees/tree43_large.txt

fixed_n_depth_sims/large_trees/tree44_large.txt

fixed_n_depth_sims/large_trees/tree45_large.txt

fixed_n_depth_sims/large_trees/tree46_large.txt

fixed_n_depth_sims/large_trees/tree47_large.txt

fixed_n_depth_sims/large_trees/tree48_large.txt

fixed_n_depth_sims/large_trees/tree49_large.txt

fixed_n_depth_sims/large_trees/tree4_large.txt

fixed_n_depth_sims/large_trees/tree50_large.txt

fixed_n_depth_sims/large_trees/tree51_large.txt

fixed_n_depth_sims/large_trees/tree52_large.txt

fixed_n_depth_sims/large_trees/tree53_large.txt

fixed_n_depth_sims/large_trees/tree54_large.txt

fixed_n_depth_sims/large_trees/tree55_large.txt

fixed_n_depth_sims/large_trees/tree56_large.txt

fixed_n_depth_sims/large_trees/tree57_large.txt

fixed_n_depth_sims/large_trees/tree58_large.txt

fixed_n_depth_sims/large_trees/tree59_large.txt

fixed_n_depth_sims/large_trees/tree5_large.txt

fixed_n_depth_sims/large_trees/tree60_large.txt

fixed_n_depth_sims/large_trees/tree61_large.txt

fixed_n_depth_sims/large_trees/tree62_large.txt

fixed_n_depth_sims/large_trees/tree63_large.txt

fixed_n_depth_sims/large_trees/tree64_large.txt

fixed_n_depth_sims/large_trees/tree65_large.txt

fixed_n_depth_sims/large_trees/tree66_large.txt

fixed_n_depth_sims/large_trees/tree67_large.txt

fixed_n_depth_sims/large_trees/tree68_large.txt

fixed_n_depth_sims/large_trees/tree69_large.txt

fixed_n_depth_sims/large_trees/tree6_large.txt

fixed_n_depth_sims/large_trees/tree70_large.txt

fixed_n_depth_sims/large_trees/tree71_large.txt

fixed_n_depth_sims/large_trees/tree72_large.txt

fixed_n_depth_sims/large_trees/tree73_large.txt

fixed_n_depth_sims/large_trees/tree74_large.txt

fixed_n_depth_sims/large_trees/tree75_large.txt

fixed_n_depth_sims/large_trees/tree76_large.txt

fixed_n_depth_sims/large_trees/tree77_large.txt

fixed_n_depth_sims/large_trees/tree78_large.txt

fixed_n_depth_sims/large_trees/tree79_large.txt

fixed_n_depth_sims/large_trees/tree7_large.txt

fixed_n_depth_sims/large_trees/tree80_large.txt

fixed_n_depth_sims/large_trees/tree81_large.txt

fixed_n_depth_sims/large_trees/tree82_large.txt

fixed_n_depth_sims/large_trees/tree83_large.txt

fixed_n_depth_sims/large_trees/tree84_large.txt

fixed_n_depth_sims/large_trees/tree85_large.txt

fixed_n_depth_sims/large_trees/tree86_large.txt

fixed_n_depth_sims/large_trees/tree87_large.txt

fixed_n_depth_sims/large_trees/tree88_large.txt

fixed_n_depth_sims/large_trees/tree89_large.txt

fixed_n_depth_sims/large_trees/tree8_large.txt

fixed_n_depth_sims/large_trees/tree90_large.txt

fixed_n_depth_sims/large_trees/tree91_large.txt

fixed_n_depth_sims/large_trees/tree92_large.txt

fixed_n_depth_sims/large_trees/tree93_large.txt

fixed_n_depth_sims/large_trees/tree94_large.txt

fixed_n_depth_sims/large_trees/tree95_large.txt

fixed_n_depth_sims/large_trees/tree96_large.txt

fixed_n_depth_sims/large_trees/tree97_large.txt

fixed_n_depth_sims/large_trees/tree98_large.txt

fixed_n_depth_sims/large_trees/tree99_large.txt

fixed_n_depth_sims/large_trees/tree9_large.txt

fixed_n_depth_sims/results_symtrans_boxconstrain_fixed_n_depth_large.txt

fixed_n_depth_sims/results_symtrans_boxconstrain_fixed_n_depth_small.txt

fixed_n_depth_sims/small_nets/net100_small.csv

fixed_n_depth_sims/small_nets/net10_small.csv

fixed_n_depth_sims/small_nets/net11_small.csv

fixed_n_depth_sims/small_nets/net12_small.csv

fixed_n_depth_sims/small_nets/net13_small.csv

fixed_n_depth_sims/small_nets/net14_small.csv

fixed_n_depth_sims/small_nets/net15_small.csv

fixed_n_depth_sims/small_nets/net16_small.csv

fixed_n_depth_sims/small_nets/net17_small.csv

fixed_n_depth_sims/small_nets/net18_small.csv

fixed_n_depth_sims/small_nets/net19_small.csv

fixed_n_depth_sims/small_nets/net1_small.csv

fixed_n_depth_sims/small_nets/net20_small.csv

fixed_n_depth_sims/small_nets/net21_small.csv

fixed_n_depth_sims/small_nets/net22_small.csv

fixed_n_depth_sims/small_nets/net23_small.csv

fixed_n_depth_sims/small_nets/net24_small.csv

fixed_n_depth_sims/small_nets/net25_small.csv

fixed_n_depth_sims/small_nets/net26_small.csv

fixed_n_depth_sims/small_nets/net27_small.csv

fixed_n_depth_sims/small_nets/net28_small.csv

fixed_n_depth_sims/small_nets/net29_small.csv

fixed_n_depth_sims/small_nets/net2_small.csv

fixed_n_depth_sims/small_nets/net30_small.csv

fixed_n_depth_sims/small_nets/net31_small.csv

fixed_n_depth_sims/small_nets/net32_small.csv

fixed_n_depth_sims/small_nets/net33_small.csv

fixed_n_depth_sims/small_nets/net34_small.csv

fixed_n_depth_sims/small_nets/net35_small.csv

fixed_n_depth_sims/small_nets/net36_small.csv

fixed_n_depth_sims/small_nets/net37_small.csv

fixed_n_depth_sims/small_nets/net38_small.csv

fixed_n_depth_sims/small_nets/net39_small.csv

fixed_n_depth_sims/small_nets/net3_small.csv

fixed_n_depth_sims/small_nets/net40_small.csv

fixed_n_depth_sims/small_nets/net41_small.csv

fixed_n_depth_sims/small_nets/net42_small.csv

fixed_n_depth_sims/small_nets/net43_small.csv

fixed_n_depth_sims/small_nets/net44_small.csv

fixed_n_depth_sims/small_nets/net45_small.csv

fixed_n_depth_sims/small_nets/net46_small.csv

fixed_n_depth_sims/small_nets/net47_small.csv

fixed_n_depth_sims/small_nets/net48_small.csv

fixed_n_depth_sims/small_nets/net49_small.csv

fixed_n_depth_sims/small_nets/net4_small.csv

fixed_n_depth_sims/small_nets/net50_small.csv

fixed_n_depth_sims/small_nets/net51_small.csv

fixed_n_depth_sims/small_nets/net52_small.csv

fixed_n_depth_sims/small_nets/net53_small.csv

fixed_n_depth_sims/small_nets/net54_small.csv

fixed_n_depth_sims/small_nets/net55_small.csv

fixed_n_depth_sims/small_nets/net56_small.csv

fixed_n_depth_sims/small_nets/net57_small.csv

fixed_n_depth_sims/small_nets/net58_small.csv

fixed_n_depth_sims/small_nets/net59_small.csv

fixed_n_depth_sims/small_nets/net5_small.csv

fixed_n_depth_sims/small_nets/net60_small.csv

fixed_n_depth_sims/small_nets/net61_small.csv

fixed_n_depth_sims/small_nets/net62_small.csv

fixed_n_depth_sims/small_nets/net63_small.csv

fixed_n_depth_sims/small_nets/net64_small.csv

fixed_n_depth_sims/small_nets/net65_small.csv

fixed_n_depth_sims/small_nets/net66_small.csv

fixed_n_depth_sims/small_nets/net67_small.csv

fixed_n_depth_sims/small_nets/net68_small.csv

fixed_n_depth_sims/small_nets/net69_small.csv

fixed_n_depth_sims/small_nets/net6_small.csv

fixed_n_depth_sims/small_nets/net70_small.csv

fixed_n_depth_sims/small_nets/net71_small.csv

fixed_n_depth_sims/small_nets/net72_small.csv

fixed_n_depth_sims/small_nets/net73_small.csv

fixed_n_depth_sims/small_nets/net74_small.csv

fixed_n_depth_sims/small_nets/net75_small.csv

fixed_n_depth_sims/small_nets/net76_small.csv

fixed_n_depth_sims/small_nets/net77_small.csv

fixed_n_depth_sims/small_nets/net78_small.csv

fixed_n_depth_sims/small_nets/net79_small.csv

fixed_n_depth_sims/small_nets/net7_small.csv

fixed_n_depth_sims/small_nets/net80_small.csv

fixed_n_depth_sims/small_nets/net81_small.csv

fixed_n_depth_sims/small_nets/net82_small.csv

fixed_n_depth_sims/small_nets/net83_small.csv

fixed_n_depth_sims/small_nets/net84_small.csv

fixed_n_depth_sims/small_nets/net85_small.csv

fixed_n_depth_sims/small_nets/net86_small.csv

fixed_n_depth_sims/small_nets/net87_small.csv

fixed_n_depth_sims/small_nets/net88_small.csv

fixed_n_depth_sims/small_nets/net89_small.csv

fixed_n_depth_sims/small_nets/net8_small.csv

fixed_n_depth_sims/small_nets/net90_small.csv

fixed_n_depth_sims/small_nets/net91_small.csv

fixed_n_depth_sims/small_nets/net92_small.csv

fixed_n_depth_sims/small_nets/net93_small.csv

fixed_n_depth_sims/small_nets/net94_small.csv

fixed_n_depth_sims/small_nets/net95_small.csv

fixed_n_depth_sims/small_nets/net96_small.csv

fixed_n_depth_sims/small_nets/net97_small.csv

fixed_n_depth_sims/small_nets/net98_small.csv

fixed_n_depth_sims/small_nets/net99_small.csv

fixed_n_depth_sims/small_nets/net9_small.csv

fixed_n_depth_sims/small_trees/tree100_small.txt

fixed_n_depth_sims/small_trees/tree10_small.txt

fixed_n_depth_sims/small_trees/tree11_small.txt

fixed_n_depth_sims/small_trees/tree12_small.txt

fixed_n_depth_sims/small_trees/tree13_small.txt

fixed_n_depth_sims/small_trees/tree14_small.txt

fixed_n_depth_sims/small_trees/tree15_small.txt

fixed_n_depth_sims/small_trees/tree16_small.txt

fixed_n_depth_sims/small_trees/tree17_small.txt

fixed_n_depth_sims/small_trees/tree18_small.txt

fixed_n_depth_sims/small_trees/tree19_small.txt

fixed_n_depth_sims/small_trees/tree1_small.txt

fixed_n_depth_sims/small_trees/tree20_small.txt

fixed_n_depth_sims/small_trees/tree21_small.txt

fixed_n_depth_sims/small_trees/tree22_small.txt

fixed_n_depth_sims/small_trees/tree23_small.txt

fixed_n_depth_sims/small_trees/tree24_small.txt

fixed_n_depth_sims/small_trees/tree25_small.txt

fixed_n_depth_sims/small_trees/tree26_small.txt

fixed_n_depth_sims/small_trees/tree27_small.txt

fixed_n_depth_sims/small_trees/tree28_small.txt

fixed_n_depth_sims/small_trees/tree29_small.txt

fixed_n_depth_sims/small_trees/tree2_small.txt

fixed_n_depth_sims/small_trees/tree30_small.txt

fixed_n_depth_sims/small_trees/tree31_small.txt

fixed_n_depth_sims/small_trees/tree32_small.txt

fixed_n_depth_sims/small_trees/tree33_small.txt

fixed_n_depth_sims/small_trees/tree34_small.txt

fixed_n_depth_sims/small_trees/tree35_small.txt

fixed_n_depth_sims/small_trees/tree36_small.txt

fixed_n_depth_sims/small_trees/tree37_small.txt

fixed_n_depth_sims/small_trees/tree38_small.txt

fixed_n_depth_sims/small_trees/tree39_small.txt

fixed_n_depth_sims/small_trees/tree3_small.txt

fixed_n_depth_sims/small_trees/tree40_small.txt

fixed_n_depth_sims/small_trees/tree41_small.txt

fixed_n_depth_sims/small_trees/tree42_small.txt

fixed_n_depth_sims/small_trees/tree43_small.txt

fixed_n_depth_sims/small_trees/tree44_small.txt

fixed_n_depth_sims/small_trees/tree45_small.txt

fixed_n_depth_sims/small_trees/tree46_small.txt

fixed_n_depth_sims/small_trees/tree47_small.txt

fixed_n_depth_sims/small_trees/tree48_small.txt

fixed_n_depth_sims/small_trees/tree49_small.txt

fixed_n_depth_sims/small_trees/tree4_small.txt

fixed_n_depth_sims/small_trees/tree50_small.txt

fixed_n_depth_sims/small_trees/tree51_small.txt

fixed_n_depth_sims/small_trees/tree52_small.txt

fixed_n_depth_sims/small_trees/tree53_small.txt

fixed_n_depth_sims/small_trees/tree54_small.txt

fixed_n_depth_sims/small_trees/tree55_small.txt

fixed_n_depth_sims/small_trees/tree56_small.txt

fixed_n_depth_sims/small_trees/tree57_small.txt

fixed_n_depth_sims/small_trees/tree58_small.txt

fixed_n_depth_sims/small_trees/tree59_small.txt

fixed_n_depth_sims/small_trees/tree5_small.txt

fixed_n_depth_sims/small_trees/tree60_small.txt

fixed_n_depth_sims/small_trees/tree61_small.txt

fixed_n_depth_sims/small_trees/tree62_small.txt

fixed_n_depth_sims/small_trees/tree63_small.txt

fixed_n_depth_sims/small_trees/tree64_small.txt

fixed_n_depth_sims/small_trees/tree65_small.txt

fixed_n_depth_sims/small_trees/tree66_small.txt

fixed_n_depth_sims/small_trees/tree67_small.txt

fixed_n_depth_sims/small_trees/tree68_small.txt

fixed_n_depth_sims/small_trees/tree69_small.txt

fixed_n_depth_sims/small_trees/tree6_small.txt

fixed_n_depth_sims/small_trees/tree70_small.txt

fixed_n_depth_sims/small_trees/tree71_small.txt

fixed_n_depth_sims/small_trees/tree72_small.txt

fixed_n_depth_sims/small_trees/tree73_small.txt

fixed_n_depth_sims/small_trees/tree74_small.txt

fixed_n_depth_sims/small_trees/tree75_small.txt

fixed_n_depth_sims/small_trees/tree76_small.txt

fixed_n_depth_sims/small_trees/tree77_small.txt

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fixed_n_depth_sims/summarizing_sims_fixed_n_depth.Rmd

fixed_n_depth_sims/summarizing_sims_fixed_n_depth.Rmd~

fixed_n_depth_sims/summarizing_sims_fixed_n_depth.pdf

fixed_n_depth_sims/summarizing_sims_fixed_n_depth.tex

fixed_n_depth_sims/summarizing_sims_fixed_n_depth_files/figure-latex/unnamed-chunk-2-1.pdf

inputData.csv

inputDataAsym.csv

man/fitPhyloNetwork.Rd man/simPhyloNetwork.Rd

manuscriptAnalyses/.DS_Store

manuscriptAnalyses/dataAnalysis/.DS_Store

manuscriptAnalyses/networkPropertySims/.DS_Store

manuscriptAnalyses/networkPropertySims/README

manuscriptAnalyses/networkPropertySims/allFwPlots.pdf manuscriptAnalyses/networkPropertySims/avg_clustering_coefficient_sims.pdf manuscriptAnalyses/networkPropertySims/avg_degree_sims.pdf manuscriptAnalyses/networkPropertySims/avg_pathlength_sims.pdf manuscriptAnalyses/networkPropertySims/centralization_sims.pdf

manuscriptAnalyses/networkPropertySims/data/.DS_Store

manuscriptAnalyses/networkPropertySims/data/README

manuscriptAnalyses/networkPropertySims/data/fru_BAIR.txt

manuscriptAnalyses/networkPropertySims/data/fru_BEEH.txt

manuscriptAnalyses/networkPropertySims/data/fru_CACG.txt

manuscriptAnalyses/networkPropertySims/data/fru_CACI.txt

manuscriptAnalyses/networkPropertySims/data/fru_CACO.txt

manuscriptAnalyses/networkPropertySims/data/fru_CAFR.txt

manuscriptAnalyses/networkPropertySims/data/fru_FROS.txt

manuscriptAnalyses/networkPropertySims/data/fru_GEN1.txt

manuscriptAnalyses/networkPropertySims/data/fru_HAMM.txt

manuscriptAnalyses/networkPropertySims/data/fru_HRAT.txt

manuscriptAnalyses/networkPropertySims/data/fru_KANT.txt

manuscriptAnalyses/networkPropertySims/data/fru_LOPE.txt

manuscriptAnalyses/networkPropertySims/data/fru_MACK.txt

manuscriptAnalyses/networkPropertySims/data/fru_MONT.txt

manuscriptAnalyses/networkPropertySims/data/fru_NCOR.txt

manuscriptAnalyses/networkPropertySims/data/fru_NNOG.txt

manuscriptAnalyses/networkPropertySims/data/fru_SAPF.txt

manuscriptAnalyses/networkPropertySims/data/fru_SNOW.txt

manuscriptAnalyses/networkPropertySims/data/fru_WYTH.txt

manuscriptAnalyses/networkPropertySims/data/fw_broadstone_stream.txt

manuscriptAnalyses/networkPropertySims/data/fw_broom.txt

manuscriptAnalyses/networkPropertySims/data/fw_celtic_sea.txt

manuscriptAnalyses/networkPropertySims/data/fw_goettingen.txt

manuscriptAnalyses/networkPropertySims/data/fw_grassland.txt

manuscriptAnalyses/networkPropertySims/data/fw_mill_stream.txt

manuscriptAnalyses/networkPropertySims/data/fw_mulgrave_river.txt

manuscriptAnalyses/networkPropertySims/data/fw_sheffield.txt

manuscriptAnalyses/networkPropertySims/data/fw_sierra_lakes.txt

manuscriptAnalyses/networkPropertySims/data/fw_silwood_park.txt

manuscriptAnalyses/networkPropertySims/data/fw_skipwith_pond.txt

manuscriptAnalyses/networkPropertySims/data/fw_tuesday_lake.txt

manuscriptAnalyses/networkPropertySims/data/pol_ARR1.txt

manuscriptAnalyses/networkPropertySims/data/pol_ARR2.txt

manuscriptAnalyses/networkPropertySims/data/pol_ARR3.txt

manuscriptAnalyses/networkPropertySims/data/pol_BAHE.txt

manuscriptAnalyses/networkPropertySims/data/pol_CLLO.txt

manuscriptAnalyses/networkPropertySims/data/pol_DIHI.txt

manuscriptAnalyses/networkPropertySims/data/pol_DISH.txt

manuscriptAnalyses/networkPropertySims/data/pol_DUPO.txt

manuscriptAnalyses/networkPropertySims/data/pol_EOL.txt

manuscriptAnalyses/networkPropertySims/data/pol_EOLZ.txt

manuscriptAnalyses/networkPropertySims/data/pol_ESKI.txt

manuscriptAnalyses/networkPropertySims/data/pol_INPK.txt

manuscriptAnalyses/networkPropertySims/data/pol_KEVN.txt

manuscriptAnalyses/networkPropertySims/data/pol_MED1.txt

manuscriptAnalyses/networkPropertySims/data/pol_MED2.txt

manuscriptAnalyses/networkPropertySims/data/pol_MEMM.txt

manuscriptAnalyses/networkPropertySims/data/pol_MOMA.txt

manuscriptAnalyses/networkPropertySims/data/pol_MOTT.txt

manuscriptAnalyses/networkPropertySims/data/pol_MULL.txt

manuscriptAnalyses/networkPropertySims/data/pol_OLAU.txt

manuscriptAnalyses/networkPropertySims/data/pol_PERC.txt

manuscriptAnalyses/networkPropertySims/data/pol_PRAP.txt

manuscriptAnalyses/networkPropertySims/data/pol_PRCA.txt

manuscriptAnalyses/networkPropertySims/data/pol_PRCG.txt

manuscriptAnalyses/networkPropertySims/data/pol_RABR.txt

manuscriptAnalyses/networkPropertySims/data/pol_RMRZ.txt

manuscriptAnalyses/networkPropertySims/data/pol_SCHM.txt

manuscriptAnalyses/networkPropertySims/data/pol_SMAL.txt

manuscriptAnalyses/networkPropertySims/data/pol_SMRA.txt

manuscriptAnalyses/networkPropertySims/density_sims.pdf manuscriptAnalyses/networkPropertySims/graphcohesion_sims.pdf manuscriptAnalyses/networkPropertySims/testNetworkProperties.R

netphy.Rproj

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nets/symtrans/net_894_symtrans.csv

nets/symtrans/net_895_symtrans.csv

nets/symtrans/net_896_symtrans.csv

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nets/symtrans/net_898_symtrans.csv

nets/symtrans/net_899_symtrans.csv

nets/symtrans/net_89_symtrans.csv

nets/symtrans/net_8_symtrans.csv

nets/symtrans/net_900_symtrans.csv

nets/symtrans/net_901_symtrans.csv

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nets/symtrans/net_903_symtrans.csv

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nets/symtrans/net_915_symtrans.csv

nets/symtrans/net_916_symtrans.csv

nets/symtrans/net_917_symtrans.csv

nets/symtrans/net_918_symtrans.csv

nets/symtrans/net_919_symtrans.csv

nets/symtrans/net_91_symtrans.csv

nets/symtrans/net_920_symtrans.csv

nets/symtrans/net_921_symtrans.csv

nets/symtrans/net_922_symtrans.csv

nets/symtrans/net_923_symtrans.csv

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nets/symtrans/net_925_symtrans.csv

nets/symtrans/net_926_symtrans.csv

nets/symtrans/net_927_symtrans.csv

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nets/symtrans/net_929_symtrans.csv

nets/symtrans/net_92_symtrans.csv

nets/symtrans/net_930_symtrans.csv

nets/symtrans/net_931_symtrans.csv

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nets/symtrans/net_936_symtrans.csv

nets/symtrans/net_937_symtrans.csv

nets/symtrans/net_938_symtrans.csv

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nets/symtrans/net_93_symtrans.csv

nets/symtrans/net_940_symtrans.csv

nets/symtrans/net_941_symtrans.csv

nets/symtrans/net_942_symtrans.csv

nets/symtrans/net_943_symtrans.csv

nets/symtrans/net_944_symtrans.csv

nets/symtrans/net_945_symtrans.csv

nets/symtrans/net_946_symtrans.csv

nets/symtrans/net_947_symtrans.csv

nets/symtrans/net_948_symtrans.csv

nets/symtrans/net_949_symtrans.csv

nets/symtrans/net_94_symtrans.csv

nets/symtrans/net_950_symtrans.csv

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nets/symtrans/net_958_symtrans.csv

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nets/symtrans/net_960_symtrans.csv

nets/symtrans/net_961_symtrans.csv

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nets/symtrans/net_963_symtrans.csv

nets/symtrans/net_964_symtrans.csv

nets/symtrans/net_965_symtrans.csv

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nets/symtrans/net_967_symtrans.csv

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nets/symtrans/net_972_symtrans.csv

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nets/symtrans/net_974_symtrans.csv

nets/symtrans/net_975_symtrans.csv

nets/symtrans/net_976_symtrans.csv

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nets/symtrans/net_978_symtrans.csv

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nets/symtrans/net_987_symtrans.csv

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nets/symtrans/net_98_symtrans.csv

nets/symtrans/net_990_symtrans.csv

nets/symtrans/net_991_symtrans.csv

nets/symtrans/net_992_symtrans.csv

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nets/symtrans/net_998_symtrans.csv

nets/symtrans/net_999_symtrans.csv

nets/symtrans/net_99_symtrans.csv

nets/symtrans/net_9_symtrans.csv

network_plots.R

network_plots.R~

optim_tweak.R

optim_tweak.R~

report_Aug6th.Rmd

report_Aug6th.Rmd~

report_Aug6th.pdf

report_Aug6th.tex

report_Aug6th_files/figure-latex/unnamed-chunk-3-1.pdf report_Aug6th_files/figure-latex/unnamed-chunk-5-1.pdf report_Nov8th.Rmd

report_Nov8th.Rmd~

report_Nov8th.pdf

report_Nov8th.tex

report_Nov8th_files/figure-latex/unnamed-chunk-3-1.pdf report_Nov8th_files/figure-latex/unnamed-chunk-5-1.pdf

results_asymtrans.txt

results_asymtrans_boxconstrain.txt

results_symtrans.txt

results_symtrans_boxconstrain.txt

sims.R

sims.R~

simserr_Jul12

simserr_Jul13

simserr_Jul19

simserr_Jul20

simserr_Jul21

testing/simpleTest.R

testing_boxconstrain

trees/asymtrans/tree_1000_asymtrans.txt

trees/asymtrans/tree_100_asymtrans.txt

trees/asymtrans/tree_101_asymtrans.txt

trees/asymtrans/tree_102_asymtrans.txt

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trees/symtrans/tree_897_symtrans.txt

trees/symtrans/tree_898_symtrans.txt

trees/symtrans/tree_899_symtrans.txt

trees/symtrans/tree_89_symtrans.txt

trees/symtrans/tree_8_symtrans.txt

trees/symtrans/tree_900_symtrans.txt

trees/symtrans/tree_901_symtrans.txt

trees/symtrans/tree_902_symtrans.txt

trees/symtrans/tree_903_symtrans.txt

trees/symtrans/tree_904_symtrans.txt

trees/symtrans/tree_905_symtrans.txt

trees/symtrans/tree_906_symtrans.txt

trees/symtrans/tree_907_symtrans.txt

trees/symtrans/tree_908_symtrans.txt

trees/symtrans/tree_909_symtrans.txt

trees/symtrans/tree_90_symtrans.txt

trees/symtrans/tree_910_symtrans.txt

trees/symtrans/tree_911_symtrans.txt

trees/symtrans/tree_912_symtrans.txt

trees/symtrans/tree_913_symtrans.txt

trees/symtrans/tree_914_symtrans.txt

trees/symtrans/tree_915_symtrans.txt

trees/symtrans/tree_916_symtrans.txt

trees/symtrans/tree_917_symtrans.txt

trees/symtrans/tree_918_symtrans.txt

trees/symtrans/tree_919_symtrans.txt

trees/symtrans/tree_91_symtrans.txt

trees/symtrans/tree_920_symtrans.txt

trees/symtrans/tree_921_symtrans.txt

trees/symtrans/tree_922_symtrans.txt

trees/symtrans/tree_923_symtrans.txt

trees/symtrans/tree_924_symtrans.txt

trees/symtrans/tree_925_symtrans.txt

trees/symtrans/tree_926_symtrans.txt

trees/symtrans/tree_927_symtrans.txt

trees/symtrans/tree_928_symtrans.txt

trees/symtrans/tree_929_symtrans.txt

trees/symtrans/tree_92_symtrans.txt

trees/symtrans/tree_930_symtrans.txt

trees/symtrans/tree_931_symtrans.txt

trees/symtrans/tree_932_symtrans.txt

trees/symtrans/tree_933_symtrans.txt

trees/symtrans/tree_934_symtrans.txt

trees/symtrans/tree_935_symtrans.txt

trees/symtrans/tree_936_symtrans.txt

trees/symtrans/tree_937_symtrans.txt

trees/symtrans/tree_938_symtrans.txt

trees/symtrans/tree_939_symtrans.txt

trees/symtrans/tree_93_symtrans.txt

trees/symtrans/tree_940_symtrans.txt

trees/symtrans/tree_941_symtrans.txt

trees/symtrans/tree_942_symtrans.txt

trees/symtrans/tree_943_symtrans.txt

trees/symtrans/tree_944_symtrans.txt

trees/symtrans/tree_945_symtrans.txt

trees/symtrans/tree_946_symtrans.txt

trees/symtrans/tree_947_symtrans.txt

trees/symtrans/tree_948_symtrans.txt

trees/symtrans/tree_949_symtrans.txt

trees/symtrans/tree_94_symtrans.txt

trees/symtrans/tree_950_symtrans.txt

trees/symtrans/tree_951_symtrans.txt

trees/symtrans/tree_952_symtrans.txt

trees/symtrans/tree_953_symtrans.txt

trees/symtrans/tree_954_symtrans.txt

trees/symtrans/tree_955_symtrans.txt

trees/symtrans/tree_956_symtrans.txt

trees/symtrans/tree_957_symtrans.txt

trees/symtrans/tree_958_symtrans.txt

trees/symtrans/tree_959_symtrans.txt

trees/symtrans/tree_95_symtrans.txt

trees/symtrans/tree_960_symtrans.txt

trees/symtrans/tree_961_symtrans.txt

trees/symtrans/tree_962_symtrans.txt

trees/symtrans/tree_963_symtrans.txt

trees/symtrans/tree_964_symtrans.txt

trees/symtrans/tree_965_symtrans.txt

trees/symtrans/tree_966_symtrans.txt

trees/symtrans/tree_967_symtrans.txt

trees/symtrans/tree_968_symtrans.txt

trees/symtrans/tree_969_symtrans.txt

trees/symtrans/tree_96_symtrans.txt

trees/symtrans/tree_970_symtrans.txt

trees/symtrans/tree_971_symtrans.txt

trees/symtrans/tree_972_symtrans.txt

trees/symtrans/tree_973_symtrans.txt

trees/symtrans/tree_974_symtrans.txt

trees/symtrans/tree_975_symtrans.txt

trees/symtrans/tree_976_symtrans.txt

trees/symtrans/tree_977_symtrans.txt

trees/symtrans/tree_978_symtrans.txt

trees/symtrans/tree_979_symtrans.txt

trees/symtrans/tree_97_symtrans.txt

trees/symtrans/tree_980_symtrans.txt

trees/symtrans/tree_981_symtrans.txt

trees/symtrans/tree_982_symtrans.txt

trees/symtrans/tree_983_symtrans.txt

trees/symtrans/tree_984_symtrans.txt

trees/symtrans/tree_985_symtrans.txt

trees/symtrans/tree_986_symtrans.txt

trees/symtrans/tree_987_symtrans.txt

trees/symtrans/tree_988_symtrans.txt

trees/symtrans/tree_989_symtrans.txt

trees/symtrans/tree_98_symtrans.txt

trees/symtrans/tree_990_symtrans.txt

trees/symtrans/tree_991_symtrans.txt

trees/symtrans/tree_992_symtrans.txt

trees/symtrans/tree_993_symtrans.txt

trees/symtrans/tree_994_symtrans.txt

trees/symtrans/tree_995_symtrans.txt

trees/symtrans/tree_996_symtrans.txt

trees/symtrans/tree_997_symtrans.txt

trees/symtrans/tree_998_symtrans.txt

trees/symtrans/tree_999_symtrans.txt

trees/symtrans/tree_99_symtrans.txt

trees/symtrans/tree_9_symtrans.txt

lukejharmon/netphy documentation built on May 21, 2019, 8:58 a.m.