LICENSE
README.md
setup.py
ToolBiox.egg-info/PKG-INFO
ToolBiox.egg-info/SOURCES.txt
ToolBiox.egg-info/dependency_links.txt
ToolBiox.egg-info/requires.txt
ToolBiox.egg-info/top_level.txt
toolbiox/DeepTools.py
toolbiox/FormatTools.py
toolbiox/GenAnno.py
toolbiox/GenAssembly.py
toolbiox/GenCompare.py
toolbiox/GenFeatAnno.py
toolbiox/GenFeatTools.py
toolbiox/GenomeTools.py
toolbiox/OrthoTools.py
toolbiox/PhylTools.py
toolbiox/QuickPlot.py
toolbiox/ResourceTools.py
toolbiox/SNPTools.py
toolbiox/SeqParser.py
toolbiox/StruTools.py
toolbiox/Submitter.py
toolbiox/TaxonTools.py
toolbiox/TransTools.py
toolbiox/__init__.py
toolbiox/config.py
toolbiox/miRNATools.py
toolbiox/versions.py
toolbiox/api/__init__.py
toolbiox/api/common/__init__.py
toolbiox/api/common/genome/__init__.py
toolbiox/api/common/genome/blast.py
toolbiox/api/xuyuxing/__init__.py
toolbiox/api/xuyuxing/comp_genome/__init__.py
toolbiox/api/xuyuxing/comp_genome/dlcpar.py
toolbiox/api/xuyuxing/comp_genome/fasttree.py
toolbiox/api/xuyuxing/comp_genome/gene_duplication_count.py
toolbiox/api/xuyuxing/comp_genome/geneloss.py
toolbiox/api/xuyuxing/comp_genome/genepainter.py
toolbiox/api/xuyuxing/comp_genome/generax.py
toolbiox/api/xuyuxing/comp_genome/mcscan.py
toolbiox/api/xuyuxing/comp_genome/orthofinder.py
toolbiox/api/xuyuxing/comp_genome/phylogenomics.py
toolbiox/api/xuyuxing/comp_genome/planttribes.py
toolbiox/api/xuyuxing/comp_genome/planttribes2.py
toolbiox/api/xuyuxing/comp_genome/tmp_mcscanx.py
toolbiox/api/xuyuxing/comp_genome/treebest.py
toolbiox/api/xuyuxing/comp_genome/orthofinder_tree_resolve/__init__.py
toolbiox/api/xuyuxing/comp_genome/orthofinder_tree_resolve/main.py
toolbiox/api/xuyuxing/comp_genome/orthofinder_tree_resolve/newick.py
toolbiox/api/xuyuxing/comp_genome/orthofinder_tree_resolve/resolve.py
toolbiox/api/xuyuxing/comp_genome/orthofinder_tree_resolve/tree.py
toolbiox/api/xuyuxing/comp_genome/orthofinder_tree_resolve/trees2ologs_of.py
toolbiox/api/xuyuxing/evolution/4DTV.py
toolbiox/api/xuyuxing/evolution/PAML_tools.py
toolbiox/api/xuyuxing/evolution/TreeShrink.py
toolbiox/api/xuyuxing/evolution/__init__.py
toolbiox/api/xuyuxing/evolution/badirate.py
toolbiox/api/xuyuxing/file_parser/__init__.py
toolbiox/api/xuyuxing/file_parser/bjobs.py
toolbiox/api/xuyuxing/file_parser/deep_data_parser.py
toolbiox/api/xuyuxing/file_parser/fileIO.py
toolbiox/api/xuyuxing/file_parser/gff_parser.py
toolbiox/api/xuyuxing/file_parser/interproscan_results.py
toolbiox/api/xuyuxing/file_parser/tmp.py
toolbiox/api/xuyuxing/file_parser/xml_parser.py
toolbiox/api/xuyuxing/genome/EDTA.py
toolbiox/api/xuyuxing/genome/__init__.py
toolbiox/api/xuyuxing/genome/annotation.py
toolbiox/api/xuyuxing/genome/annotation_shell_code.py
toolbiox/api/xuyuxing/genome/blast_db.py
toolbiox/api/xuyuxing/genome/blat.py
toolbiox/api/xuyuxing/genome/busco.py
toolbiox/api/xuyuxing/genome/cd_hit.py
toolbiox/api/xuyuxing/genome/genblasta.py
toolbiox/api/xuyuxing/genome/genewise.py
toolbiox/api/xuyuxing/genome/hmmer.py
toolbiox/api/xuyuxing/genome/jellyfish.py
toolbiox/api/xuyuxing/genome/juicer.py
toolbiox/api/xuyuxing/genome/maker.py
toolbiox/api/xuyuxing/genome/maker_config_file_code.py
toolbiox/api/xuyuxing/genome/maker_p.py
toolbiox/api/xuyuxing/genome/mcl.py
toolbiox/api/xuyuxing/genome/mummer.py
toolbiox/api/xuyuxing/genome/repeat_anno.py
toolbiox/api/xuyuxing/genome/repeatmasker.py
toolbiox/api/xuyuxing/genome/trf.py
toolbiox/api/xuyuxing/plot/VennDemo.py
toolbiox/api/xuyuxing/plot/VennDiagram.py
toolbiox/api/xuyuxing/plot/__init__.py
toolbiox/api/xuyuxing/plot/barplot.py
toolbiox/api/xuyuxing/plot/base.py
toolbiox/api/xuyuxing/plot/circos.py
toolbiox/api/xuyuxing/plot/eteplot.py
toolbiox/api/xuyuxing/plot/geneplot.py
toolbiox/api/xuyuxing/plot/get_hotplot_data.py
toolbiox/api/xuyuxing/plot/histogram.py
toolbiox/api/xuyuxing/plot/hotplot.py
toolbiox/api/xuyuxing/plot/hotplot2.py
toolbiox/api/xuyuxing/plot/hotplot3.py
toolbiox/api/xuyuxing/plot/hotplot4.py
toolbiox/api/xuyuxing/plot/merge_fig.py
toolbiox/api/xuyuxing/plot/path_patch.py
toolbiox/api/xuyuxing/plot/plot_exp.py
toolbiox/api/xuyuxing/plot/scatplot.py
toolbiox/api/xuyuxing/resource/GO.py
toolbiox/api/xuyuxing/resource/JGI.py
toolbiox/api/xuyuxing/resource/KEGG.py
toolbiox/api/xuyuxing/resource/__init__.py
toolbiox/api/xuyuxing/resource/dfam.py
toolbiox/api/xuyuxing/resource/genome_resource.py
toolbiox/api/xuyuxing/resource/mercator.py
toolbiox/api/xuyuxing/resource/mercator2.py
toolbiox/api/xuyuxing/resource/miRBase.py
toolbiox/api/xuyuxing/resource/ncbi_gene.py
toolbiox/api/xuyuxing/resource/ncbi_genome.py
toolbiox/api/xuyuxing/resource/ncbi_sra.py
toolbiox/api/xuyuxing/resource/repbase.py
toolbiox/api/xuyuxing/resource/uniprot.py
toolbiox/api/xuyuxing/resource/kegg/__init__.py
toolbiox/api/xuyuxing/resource/kegg/kegg_config.py
toolbiox/api/xuyuxing/resource/kegg/kegg_db.py
toolbiox/lib/__init__.py
toolbiox/lib/common/__init__.py
toolbiox/lib/common/fileIO.py
toolbiox/lib/common/os.py
toolbiox/lib/common/sqlite_command.py
toolbiox/lib/common/util.py
toolbiox/lib/common/evolution/__init__.py
toolbiox/lib/common/evolution/orthotools2.py
toolbiox/lib/common/evolution/tree_operate.py
toolbiox/lib/common/genome/__init__.py
toolbiox/lib/common/genome/comp_genome.py
toolbiox/lib/common/genome/genome_feature2.py
toolbiox/lib/common/genome/seq_base.py
toolbiox/lib/common/math/__init__.py
toolbiox/lib/common/math/bin_and_window.py
toolbiox/lib/common/math/interval.py
toolbiox/lib/common/math/network.py
toolbiox/lib/common/math/set.py
toolbiox/lib/xuyuxing/__init__.py
toolbiox/lib/xuyuxing/genome_base.py
toolbiox/lib/xuyuxing/base/SGE_shell.py
toolbiox/lib/xuyuxing/base/__init__.py
toolbiox/lib/xuyuxing/base/base_function.py
toolbiox/lib/xuyuxing/base/common_command.py
toolbiox/lib/xuyuxing/base/console.py
toolbiox/lib/xuyuxing/base/constants.py
toolbiox/lib/xuyuxing/base/pandas_tools.py
toolbiox/lib/xuyuxing/evolution/HGT.py
toolbiox/lib/xuyuxing/evolution/__init__.py
toolbiox/lib/xuyuxing/evolution/comparative_genome.py
toolbiox/lib/xuyuxing/evolution/orthotools.py
toolbiox/lib/xuyuxing/evolution/synteny_plot.py
toolbiox/lib/xuyuxing/evolution/taxonomy.py
toolbiox/lib/xuyuxing/evolution/tree_operate_ete3.py
toolbiox/lib/xuyuxing/evolution/tree_plot.py
toolbiox/lib/xuyuxing/math/__init__.py
toolbiox/lib/xuyuxing/math/base.py
toolbiox/lib/xuyuxing/math/graph.py
toolbiox/lib/xuyuxing/math/interval_set.py
toolbiox/lib/xuyuxing/math/lcs.py
toolbiox/lib/xuyuxing/math/matrix.py
toolbiox/lib/xuyuxing/math/sample.py
toolbiox/lib/xuyuxing/math/set_operating.py
toolbiox/lib/xuyuxing/math/statistical_learning.py
toolbiox/lib/xuyuxing/math/stats.py
toolbiox/lib/xuyuxing/seq/__init__.py
toolbiox/lib/xuyuxing/seq/genome_feature.py
toolbiox/lib/xuyuxing/structure/__init__.py
toolbiox/lib/xuyuxing/structure/dcd_file.py
toolbiox/lib/xuyuxing/structure/format.py
toolbiox/src/__init__.py
toolbiox/src/xuyuxing/__init__.py
toolbiox/src/xuyuxing/GenomeTools/AnnoCleaner.py
toolbiox/src/xuyuxing/GenomeTools/AssemblyEvaluator.py
toolbiox/src/xuyuxing/GenomeTools/CentromereSeed.py
toolbiox/src/xuyuxing/GenomeTools/ContaminationFilter.py
toolbiox/src/xuyuxing/GenomeTools/ContigDepth.py
toolbiox/src/xuyuxing/GenomeTools/ContigFilter.py
toolbiox/src/xuyuxing/GenomeTools/ContigFilter2.py
toolbiox/src/xuyuxing/GenomeTools/FeatureCompare.py
toolbiox/src/xuyuxing/GenomeTools/Gene2Genome.py
toolbiox/src/xuyuxing/GenomeTools/GeneBank2Gff3.py
toolbiox/src/xuyuxing/GenomeTools/GeneFamily.py
toolbiox/src/xuyuxing/GenomeTools/GeneFunction.py
toolbiox/src/xuyuxing/GenomeTools/GeneLoss.py
toolbiox/src/xuyuxing/GenomeTools/GeneLoss2.py
toolbiox/src/xuyuxing/GenomeTools/GeneLossStat.py
toolbiox/src/xuyuxing/GenomeTools/GenomeFormater.py
toolbiox/src/xuyuxing/GenomeTools/GenomeSurvey.py
toolbiox/src/xuyuxing/GenomeTools/MapOldAnno.py
toolbiox/src/xuyuxing/GenomeTools/MaskFasta2gff.py
toolbiox/src/xuyuxing/GenomeTools/ModelPlantGenome.py
toolbiox/src/xuyuxing/GenomeTools/ProteinByPfam.py
toolbiox/src/xuyuxing/GenomeTools/PseudoGene.py
toolbiox/src/xuyuxing/GenomeTools/PseudoGene2.py
toolbiox/src/xuyuxing/GenomeTools/Pseudogene4.py
toolbiox/src/xuyuxing/GenomeTools/ReGetContig.py
toolbiox/src/xuyuxing/GenomeTools/RepeatMasker2Gff3.py
toolbiox/src/xuyuxing/GenomeTools/Telomere.py
toolbiox/src/xuyuxing/GenomeTools/WPGmapper.py
toolbiox/src/xuyuxing/GenomeTools/__init__.py
toolbiox/src/xuyuxing/GenomeTools/coding.py
toolbiox/src/xuyuxing/GenomeTools/hWGDdetector.py
toolbiox/src/xuyuxing/GenomeTools/rRNAFinder.py
toolbiox/src/xuyuxing/GenomeTools/temp_extract_evidence.py
toolbiox/src/xuyuxing/HGT/HGT.py
toolbiox/src/xuyuxing/HGT/PtHGT.py
toolbiox/src/xuyuxing/HGT/__init__.py
toolbiox/src/xuyuxing/OrthoTools/EasyHcluster.py
toolbiox/src/xuyuxing/OrthoTools/GeneLoss.py
toolbiox/src/xuyuxing/OrthoTools/__init__.py
toolbiox/src/xuyuxing/Transcriptome/Denovo2RefCountMap.py
toolbiox/src/xuyuxing/Transcriptome/__init__.py
toolbiox/src/xuyuxing/Transcriptome/coexpression.py
toolbiox/src/xuyuxing/Transcriptome/contamination.py
toolbiox/src/xuyuxing/tools/MappedReadsComparing.py
toolbiox/src/xuyuxing/tools/TestTools.py
toolbiox/src/xuyuxing/tools/__init__.py
toolbiox/src/xuyuxing/tools/deeptools.py
toolbiox/src/xuyuxing/tools/gene_feature_tools.py
toolbiox/src/xuyuxing/tools/hyphy_tools.py
toolbiox/src/xuyuxing/tools/ncbi_tools.py
toolbiox/src/xuyuxing/tools/phytools.py
toolbiox/src/xuyuxing/tools/seqtools.py
toolbiox/src/xuyuxing/tools/taxontools.py