LICENSE
MANIFEST.in
README.md
setup.py
TreeSAK/ALE.py
TreeSAK/ALE1.py
TreeSAK/ALE2.py
TreeSAK/ALE2RTC.py
TreeSAK/ALE3.py
TreeSAK/ALE4.py
TreeSAK/ALE5.py
TreeSAK/ALE6.py
TreeSAK/ALE7.py
TreeSAK/ALE_backup.py
TreeSAK/AssessCVG.py
TreeSAK/AssessMarker.py
TreeSAK/AssessMarkerDeltaLL.py
TreeSAK/AssessMarkerPA.py
TreeSAK/AssessPB.py
TreeSAK/BMGE.jar
TreeSAK/BMGE.py
TreeSAK/CompareMCMC.py
TreeSAK/ConcateMSA.py
TreeSAK/ConvertMSA.py
TreeSAK/Dir.rb
TreeSAK/ExtractMarkerSeq.py
TreeSAK/FastRoot.py
TreeSAK/FastRoot_backup.py
TreeSAK/FigTree.py
TreeSAK/GTDB_tree.py
TreeSAK/GeneTree.py
TreeSAK/KEGG_Luo17.py
TreeSAK/LcaToLeaves.py
TreeSAK/MarkerRef2Tree.py
TreeSAK/MarkerRef2Tree_backup.py
TreeSAK/MarkerSeq2Tree.py
TreeSAK/MarkerSeq2Tree_backup.py
TreeSAK/ModifyTopo.py
TreeSAK/Newick_tree_plotter.py
TreeSAK/OMA.py
TreeSAK/OMA2.py
TreeSAK/OneLineAln.py
TreeSAK/PB.py
TreeSAK/PMSF.py
TreeSAK/PhyloBiAssoc.R
TreeSAK/PhyloBiAssoc.py
TreeSAK/PlotMCMC.py
TreeSAK/PlotMcmcNode.py
TreeSAK/PlotMcmcNode_old.py
TreeSAK/RootTree.py
TreeSAK/RootTreeGTDB214.py
TreeSAK/RootTreeGTDB220.py
TreeSAK/RootTreeGTDB226.py
TreeSAK/SequentialDating.py
TreeSAK/SingleAleHGT.py
TreeSAK/SingleLinePhy.py
TreeSAK/SliceMSA.py
TreeSAK/SplitScore.py
TreeSAK/SplitScore1.py
TreeSAK/SplitScore1OMA.py
TreeSAK/SplitScore2.py
TreeSAK/TaxaCountStats.R
TreeSAK/TaxonTree.py
TreeSAK/TreeSAK_config.py
TreeSAK/VERSION
TreeSAK/VisHPD95.R
TreeSAK/VisHPD95.py
TreeSAK/__init__.py
TreeSAK/ale_parser.py
TreeSAK/ale_splitter.py
TreeSAK/alignment_pruner.pl
TreeSAK/assessOG.py
TreeSAK/catfasta2phy.py
TreeSAK/cogTree.py
TreeSAK/compare_trees.R
TreeSAK/compare_trees.py
TreeSAK/dating.py
TreeSAK/dating_ss.py
TreeSAK/deltall.py
TreeSAK/do_rrtc.rb
TreeSAK/fa2phy.py
TreeSAK/format_leaf_name.py
TreeSAK/gap_stats.py
TreeSAK/get_SCG_tree.py
TreeSAK/get_arCOG_seq.py
TreeSAK/global_functions.py
TreeSAK/gnm_leaves.py
TreeSAK/iTOL.py
TreeSAK/iTOL_gene_tree.py
TreeSAK/itol_msa_stats.py
TreeSAK/keep_highest_rrtc.py
TreeSAK/koTree.py
TreeSAK/label_tree.R
TreeSAK/label_tree.py
TreeSAK/mad.py
TreeSAK/mcmc2tree.py
TreeSAK/mcmcTC copy.py
TreeSAK/mcmcTC.py
TreeSAK/mcmctree_vs_reltime.R
TreeSAK/mcmctree_vs_reltime.py
TreeSAK/merge_pdf.py
TreeSAK/pRTC.py
TreeSAK/parse_mcmctree.py
TreeSAK/parse_reltime.py
TreeSAK/phy2fa.py
TreeSAK/plot_distruibution_th.py
TreeSAK/prep_mcmctree_ctl.py
TreeSAK/print_leaves.py
TreeSAK/pruneMSA.py
TreeSAK/recode.py
TreeSAK/remove_bias.R
TreeSAK/rename_leaves.py
TreeSAK/replace_clade.py
TreeSAK/root_with_out_group.py
TreeSAK/run_TaxaCountStats_R_s1.py
TreeSAK/subsample_drep_gnms.py
TreeSAK/subset.py
TreeSAK/subset_tree_stupid_old_way.py
TreeSAK/supertree.py
TreeSAK/tmp_1.py
TreeSAK/tmp_2.py
TreeSAK/tmp_3.py
TreeSAK/weighted_rand.rb
bin/TreeSAK
treesak.egg-info/PKG-INFO
treesak.egg-info/SOURCES.txt
treesak.egg-info/dependency_links.txt
treesak.egg-info/requires.txt
treesak.egg-info/top_level.txt