Package: BPM 1.0.0
BPM: Bayesian Purity Model to Estimate Tumor Purity
Bayesian purity model to estimate tumor purity using methylation array data (DNA methylation Infinium 450K array data) without reference samples.
Authors:
BPM_1.0.0.tar.gz
BPM_1.0.0.tar.gz(r-4.5-noble)BPM_1.0.0.tar.gz(r-4.4-noble)
BPM_1.0.0.tgz(r-4.4-emscripten)BPM_1.0.0.tgz(r-4.3-emscripten)
BPM.pdf |BPM.html✨
BPM/json (API)
# Install 'BPM' in R: |
install.packages('BPM', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- annotGeneNames - Gene names of probes in 450K array dat
- goodProbes - Good probes in packages
- simUCEC - Simulated data to illustrate datasets in packages
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 6 years agofrom:2c0f4e4873. Checks:OK: 2. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Dec 23 2024 |
R-4.5-linux | OK | Dec 23 2024 |
Exports:ApiGetDMCsBayPMfullSampler
Readme and manuals
Help Manual
Help page | Topics |
---|---|
gene names of probes in 450K array dat | annotGeneNames |
Get TOPK=500 DMCs and non-DMCs using moderated-t test | ApiGetDMCs |
Bayesian Purity Model (BPM) Main functions. | BayPM |
BPM software package | BPM-package BPM |
Estimate noise intensity (nv) for non-DMCs, using maximum likelihood estmiation. | estimateNu |
Sampling xi and alpha (tumor purity) | fullSampler |
good probes in packages | goodProbes |
Simulated data to illustrate datasets in packages | simUCEC |