Package: EpiDISH 2.21.1
Shijie C. Zheng
EpiDISH: Epigenetic Dissection of Intra-Sample-Heterogeneity
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 whole blood, 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.
Authors:
EpiDISH_2.21.1.tar.gz
EpiDISH_2.21.1.zip(r-4.5)EpiDISH_2.21.1.zip(r-4.4)EpiDISH_2.21.1.zip(r-4.3)
EpiDISH_2.21.1.tgz(r-4.4-any)EpiDISH_2.21.1.tgz(r-4.3-any)
EpiDISH_2.21.1.tar.gz(r-4.5-noble)EpiDISH_2.21.1.tar.gz(r-4.4-noble)
EpiDISH_2.21.1.tgz(r-4.4-emscripten)EpiDISH_2.21.1.tgz(r-4.3-emscripten)
EpiDISH.pdf |EpiDISH.html✨
EpiDISH/json (API)
NEWS
| # Install 'EpiDISH' in R: |
| install.packages('EpiDISH', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/sjczheng/epidish/issues
- DummyBeta.m - Dummy beta value matrix
- LiuDataSub.m - Whole blood example beta value matrix
- cent12CT.m - Whole blood reference of 12 blood cell subtypes for EPIC array
- cent12CT450k.m - Whole blood reference of 12 blood cell subtypes for 450k array
- centBloodSub.m - Whole blood reference of 188 tsDHS-DMCs and 7 blood cell subtypes
- centDHSbloodDMC.m - Whole blood reference of 333 tsDHS-DMCs and 7 blood cell subtypes
- centEpiFibFatIC.m - Reference for breast tissue
- centEpiFibIC.m - Reference for genenric epithelial tissue
On BioConductor:EpiDISH-2.21.1(bioc 3.20)EpiDISH-2.20.0(bioc 3.19)
dnamethylationmethylationarrayepigeneticsdifferentialmethylationimmunooncology
Last updated 4 months agofrom:43286e6aef. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Sep 19 2024 |
| R-4.5-win | NOTE | Sep 19 2024 |
| R-4.5-linux | NOTE | Sep 19 2024 |
| R-4.4-win | NOTE | Sep 19 2024 |
| R-4.4-mac | NOTE | Sep 19 2024 |
| R-4.3-win | NOTE | Sep 19 2024 |
| R-4.3-mac | NOTE | Sep 19 2024 |
Exports:CellDMCDoMetaEfronepidishhepidish
Dependencies:classclie1071gluelatticelifecyclelocfdrmagrittrMASSMatrixmatrixStatsproxyquadprogrlangstringistringrvctrs
