iSEEtree
Bioc currentInteractive visualisation for microbiome data
Release Lineage
Entered 3.20 · Oct 30, 2024
Current · Requires R 4.6
Description
iSEEtree is an extension of iSEE for the TreeSummarizedExperiment data container. It provides interactive panel designs to explore hierarchical datasets, such as the microbiome and cell lines.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
22 12 exported
Complexity
1.2 avg / 4 max
Call network
22 nodes / 1 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
5,577
Files
60
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
13
Internal functions
10
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.15
testthat edition
3
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
5.9%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
4
First release
2024-10-29
Latest release
2026-04-28
Avg cadence
181 days
Cold removal rate
–
Dep drift
5
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 15 (2 internal)includes a package overview page
- Examples that run
- 100%13 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0% with a bibliography file
Repository practices
4 development-tooling and community-health practices detected across 2 families in the upstream repository
Checks run against github.com/microbiome/iseetree on 2026-10-18.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
Topics
Depended on by (1)
Bioconductor (1)
People
- Giulio Benedetti author maintainer
- Leo Lahti author
- Ely Seraidarian contributor
Cite
Cite this package
Run in R for the authors' entry:
citation("iSEEtree")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1093/bioadv/vbaf107.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.