Files in fionarhuang/TreeSummarizedExperiment

TreeSummarizedExperiment: a S4 Class for Data with Tree Structures

R/TreeSummarizedExperiment.R R/aboutLoop.R R/aggTSE.R R/allClass.R R/allGenerics.R R/changeTree.R R/classAccessor.R R/classValid.R R/coercion.R R/combine.R R/data.R R/deprecate_Fun.R R/internal_utils.R R/makeTSE.R R/tree_addLabel.R R/tree_asLeaf.R R/tree_asPhylo.R R/tree_convertNode.R R/tree_countLeaf.R R/tree_countNode.R R/tree_distNode.R R/tree_findAncestor.R R/tree_findChild.R R/tree_findDescendant.R R/tree_findSibling.R R/tree_isLeaf.R R/tree_joinNode.R R/tree_matTree.R R/tree_printNode.R R/tree_shareNode.R R/tree_showNode.R R/tree_toTree.R R/tree_trackNode.R R/tree_unionLeaf.R R/updateObject.R README.md man/LinkDataFrame-class.Rd man/LinkDataFrame-constructor.Rd man/TreeSummarizedExperiment-accessor.Rd man/TreeSummarizedExperiment-class.Rd man/TreeSummarizedExperiment-combine.Rd man/TreeSummarizedExperiment-constructor.Rd man/TreeSummarizedExperiment-internal.Rd man/TreeeSummarizedExperiment-package.Rd man/addLabel.Rd man/aggTSE.Rd man/aggValue.Rd man/asLeaf.Rd man/asPhylo.Rd man/changeTree.Rd man/convertNode.Rd man/countLeaf.Rd man/countNode.Rd man/detectLoop.Rd man/distNode.Rd man/dot-all_equal_in_list.Rd man/dot-all_have_DNAStringSet.Rd man/dot-all_have_DNAStringSetList.Rd man/dot-all_nonnull_in_list.Rd man/dot-all_null_in_list.Rd man/dot-any_null_in_list.Rd man/dot-auto_rename_list.Rd man/dot-bind_link_tree.Rd man/dot-is_equal_link.Rd man/dot-match_phylo.Rd man/dot-match_phylo_list.Rd man/dot-match_x_dupY.Rd man/dot-name_y_with_x.Rd man/dot-numeric_ij.Rd man/dot-rbind_refSeq.Rd man/dot-replace_link_tree_1d.Rd man/dot-subset_leaf.Rd man/dot-update_whichTree.Rd man/findAncestor.Rd man/findChild.Rd man/findDescendant.Rd man/findSibling.Rd man/isLeaf.Rd man/joinNode.Rd man/makeTSE.Rd man/matTree.Rd man/phylo.Rd man/printNode.Rd man/resolveLoop.Rd man/shareNode.Rd man/showNode.Rd man/tinyTree.Rd man/toTree.Rd man/trackNode.Rd man/unionLeaf.Rd man/updateObject-TreeSummarizedExperiment-method.Rd tests/testthat.R tests/testthat/test-Accessor-Constructor-subset.R tests/testthat/test-Accessor-Constructor.R tests/testthat/test_addLabel.R tests/testthat/test_aggTSE.R tests/testthat/test_asPhylo.R tests/testthat/test_changeTree.R tests/testthat/test_combine.R tests/testthat/test_dimTree.R tests/testthat/test_subsetByLeaf.R tests/testthat/test_subsetByNode.R tests/testthat/test_tree.R tests/testthat/test_tree_asLeaf.R tests/testthat/test_tree_convertNode.R tests/testthat/test_tree_findDescendant.R tests/testthat/test_tree_isLeaf.R tests/testthat/test_tree_matTree.R tests/testthat/test_tree_setters.R tests/testthat/test_tree_toTree.R vignettes/Introduction_to_treeSummarizedExperiment.Rmd vignettes/The_combination_of_multiple_TSEs.Rmd