Use ComplexUpset, metacoder heat trees, and ggtree fruit bars - #8
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ComplexUpset and metacoder stay optional and those plots stop without them. Heat trees are metacoder only. Differential trees use the ggtree fruit layout, so ggtree and ggtreeExtra are required. The README shows the raincloud bar plot on its own. Co-authored-by: dvsmutin <dvsmutin@gmail.com>
dsmutin
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September 25, 2026 09:28
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Summary
df2upset()isComplexUpset::upset. ComplexUpset is optional, and the function stops when it is not installed.df2heattree()is onlymetacoder::heat_tree. It stops when metacoder is not installed. There is no ggplot tree.df2difftree()follows the harness ggtree script: a circular cladogram and a ggtreeExtra fruit bar of log2 fold change.ggtreeandggtreeExtraare required.engine = "metacoder"draws the same fold changes withmetacoder::heat_treeand stops when metacoder is not installed.Verification
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