BindingSiteFinder
Bioc currentBinding site defintion based on iCLIP data
Release Lineage
Entered 3.14 · Oct 27, 2021
Current · Requires R 4.6
Description
Precise knowledge on the binding sites of an RNA-binding protein (RBP) is key to understand (post-) transcriptional regulatory processes. Here we present a workflow that describes how exact binding sites can be defined from iCLIP data. The package provides functions for binding site definition and result visualization. For details please see the vignette.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
84 49 exported
Complexity
8.9 avg / 42 max
Call network
84 nodes / 86 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
17,229
Files
128
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
59
Internal functions
33
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.08
testthat edition
–
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
4.2
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
10
First release
2021-10-26
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
15
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 62
- Examples that run
- 100%62 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 99%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
Checks run against github.com/zarnackgroup/bindingsitefinder on 2026-10-22.
No development-tooling practices detected in the upstream repository.
Datasets
Topics
People
- Mirko Brüggemann author maintainer
- Melina Klostermann author
- Kathi Zarnack author
Cite
Cite this package
Run in R for the authors' entry:
citation("BindingSiteFinder")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1016/j.ymeth.2019.11.008.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.