EpiDISH
Bioc currentEpigenetic Dissection of Intra-Sample-Heterogeneity
Release Lineage
Entered 3.6 · Oct 31, 2017
Current · Requires R 4.6
Description
EpiDISH is a R package to infer the proportions of a priori known cell-types present in a sample representing a mixture of such cell-types. Right now, the package can be used on DNAm data of blood-tissue of any age, from birth to old-age, generic epithelial tissue and breast tissue. Besides, the package provides a function that allows the identification of differentially methylated cell-types and their directionality of change in Epigenome-Wide Association Studies.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
8 5 exported
Complexity
8 avg / 29 max
Call network
8 nodes / 6 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
1,852
Files
41
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
5
Internal functions
3
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.02
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.1
System requirements
–
C++ standard
–
License
GPL-2
License flags
SPDX valid, OSI approved
History
Versions
18
First release
2017-10-30
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
7
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 14
- Examples that run
- 75%3 run in a plain check · 1 never run
- Exported functions with examples
- 80%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 71%
Repository practices
1 development-tooling and community-health practice detected across 1 family in the upstream repository
Checks run against github.com/sjczheng/epidish on 2026-10-22.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| DummyBeta.m | matrix | 2,000 × 10 | No other package |
| LiuDataSub.m | matrix | 500 × 50 | No other package |
| cent12CT.m | matrix | 600 × 12 | No other package |
| cent12CT450k.m | matrix | 600 × 12 | No other package |
| centBloodSub.m | matrix | 188 × 7 | No other package |
| centDHSbloodDMC.m | matrix | 333 × 7 | No other package |
| centEpiFibFatIC.m | matrix | 491 × 4 | No other package |
| centEpiFibIC.m | matrix | 716 × 3 | No other package |
| centUniLIFE.m | matrix | 1,906 × 19 | No other package |
Topics
Depended on by (1)
Bioconductor (1)
Suggested by (3)
People
- Shijie C. Zheng author maintainer
- Andrew E. Teschendorff author
Cite
Cite this package
Run in R for the authors' entry:
citation("EpiDISH")The package provides a citation file, so citation() returns the authors' own entry.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.