Package: InterSIM 2.3.0
Prabhakar Chalise
InterSIM: Simulation of Inter-Related Genomic Datasets
Generates three inter-related genomic datasets: methylation, gene expression and protein expression having user specified cluster patterns. The simulation utilizes the realistic inter- and intra- relationships from real DNA methylation, mRNA expression and protein expression data from the TCGA ovarian cancer study, Chalise (2016) <doi:10.1016/j.cmpb.2016.02.011>.
Authors:
InterSIM_2.3.0.tar.gz
InterSIM_2.3.0.tar.gz(r-4.7-any)InterSIM_2.3.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
InterSIM/json (API)
| # Install 'InterSIM' in R: |
| install.packages('InterSIM', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- cov.expr - InterSIM
- cov.M - InterSIM
- cov.protein - InterSIM
- CpG.gene.map.for.DEG - InterSIM
- mean.expr - InterSIM
- mean.expr.with.mapped.protein - InterSIM
- mean.M - InterSIM
- mean.protein - InterSIM
- methyl.gene.level.mean - InterSIM
- protein.gene.map.for.DEP - InterSIM
- rho.expr.protein - InterSIM
- rho.methyl.expr - InterSIM
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:bc55b1e85b. Checks:3 OK, 1 FAIL. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 140 | ||
| source / vignettes | OK | 210 | ||
| linux-release-x86_64 | OK | 140 | ||
| wasm-release | FAIL | 104 |
Exports:cov.exprcov.Mcov.proteinCpG.gene.map.for.DEGInterSIMlogitmean.exprmean.expr.with.mapped.proteinmean.Mmean.proteinmethyl.gene.level.meanprotein.gene.map.for.DEPrev.logitrho.expr.proteinrho.methyl.expr
Dependencies:BiobaseBiocGenericsBiocManagercliclustercodetoolscolorspacecpp11digestdoParallelfarverforeachgenericsggplot2gluegridBasegtableisobanditeratorslabelinglifecyclemagrittrMASSNMFplyrR6RColorBrewerRcppregistryreshape2rlangrngtoolsS7scalesstringistringrvctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Simulation of inter-related genomic datasets | InterSIM-package |
| InterSIM | cov.expr cov.M cov.protein CpG.gene.map.for.DEG InterSIM logit mean.expr mean.expr.with.mapped.protein mean.M mean.protein methyl.gene.level.mean protein.gene.map.for.DEP rev.logit rho.expr.protein rho.methyl.expr |