TreeAndLeaf
Bioc currentDisplaying binary trees with focus on dendrogram leaves
Release Lineage
Entered 3.11 · Apr 28, 2020
Current · Requires R 4.6
Description
TreeAndLeaf implements a hybrid layout strategy that enhances leaf-level visualization in dendrograms. By integrating force-directed graph and tree layout algorithms, it enables projection of multiple layers of information onto graph–tree diagrams.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
12 2 exported
Complexity
3.8 avg / 9 max
Call network
12 nodes / 9 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
1,148
Files
29
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
2
Internal functions
10
Testing
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
33.3%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
13
First release
2020-04-27
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
1
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 6includes a package overview page
- Examples that run
- 100%3 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 67%
Repository practices
Checks run against github.com/sysbiolab/treeandleaf on 2026-10-21.
No development-tooling practices detected in the upstream repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| phylo_species | data.frame | 5,090 × 4 | No other package |
| phylo_tree | phylo | 3 elements | No other package |
| spdata | data.frame | 507 × 5 | No other package |
Topics
Suggested by (1)
People
- Mauro Castro author maintainer
- Milena Cardoso author
- Clarice Groeneveld contributor
- Leonardo Kume author
- Luis Rizzardi author
- Sheyla Trefflich contributor
Cite
Cite this package
Run in R for the authors' entry:
citation("TreeAndLeaf")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1093/bioinformatics/btab819.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.