iscream
Bioc currentMake fast and memory efficient BED file queries, summaries and matrices
Release Lineage
Entered 3.22 · Oct 30, 2025
Current · Requires R 4.6
Description
BED files store ranged genomic data that can be queried even when the files are compressed. iscream can query data from BED files and return them in muliple formats: parsed records or their summary statistics as data frames or GenomicRanges objects, and matrices as matrix, GenomicRanges, or SummarizedExperiment objects. iscream also provides specialized support for importing methylation data.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
123 17 exported
Complexity
2.3 avg / 7 max
Call network
123 nodes / 145 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
7,828
Files
169
Compiled share
21.1%
Has compiled src
Yes
Language breakdown
API
Exported functions
17
Internal functions
43
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.90
testthat edition
3
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4
System requirements
1
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
2
First release
2025-10-29
Latest release
2026-04-28
Avg cadence
181 days
Cold removal rate
–
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- References docs
- 0%
Topics
People
- James Eapen author maintainer
- Jacob Morrison author
- Hui Shen author ths fnd
- Nathan Spix contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("iscream")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.