Package: scDECO 0.1.0

Anderson Bussing

scDECO: Estimating Dynamic Correlation

Implementations for two different Bayesian models of differential co-expression. scdeco.cop() fits the bivariate Gaussian copula model from Zichen Ma, Shannon W. Davis, Yen-Yi Ho (2023) <doi:10.1111/biom.13701>, while scdeco.pg() fits the bivariate Poisson-Gamma model from Zhen Yang, Yen-Yi Ho (2022) <doi:10.1111/biom.13457>.

Authors:Anderson Bussing [aut, cre], Yen-Yi Ho [aut, ths], Zichen Ma [aut], Zhen Yang [aut]

scDECO_0.1.0.tar.gz
scDECO_0.1.0.zip(r-4.7)scDECO_0.1.0.zip(r-4.6)scDECO_0.1.0.zip(r-4.5)
scDECO_0.1.0.tgz(r-4.6-any)scDECO_0.1.0.tgz(r-4.5-any)
scDECO_0.1.0.tar.gz(r-4.7-any)scDECO_0.1.0.tar.gz(r-4.6-any)
scDECO_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
scDECO/json (API)

# Install 'scDECO' in R:
install.packages('scDECO', repos = c('https://yenyiho-lab.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/yenyiho-lab/scdeco/issues

Uses libs:
  • jags– Just Another Gibbs Sampler for Bayesian MCMC
  • c++– GNU Standard C++ Library v3

On CRAN:

Conda:

jagscpp

4.00 score 254 downloads 4 exports 20 dependencies

Last updated from:afa8d434c1. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK149
source / vignettesOK176
linux-release-x86_64OK138
macos-release-arm64OK133
macos-oldrel-arm64OK146
windows-develOK96
windows-releaseOK94
windows-oldrelOK119
wasm-releaseOK103

Exports:scdeco.copscdeco.pgscdeco.sim.copscdeco.sim.pg

Dependencies:clicodaexpmgenericsgluelatticelifecyclemagrittrMASSMatrixmsmmvtnormpillarpkgconfigrjagsrlangsurvivaltibbleutf8vctrs

scDECO-Copula
Quick Start | Model Details | Marginal Parameterizations | Incorporating Zero-inflation | Parameter Estimation | Citations
Rendered fromscDECO-Copula.Rmdusingknitr::rmarkdown

Last update: 2024-06-02
Started: 2024-05-01

scDECO-Poisson-Gamma
Quick Start | Model Details | Parameter Estimation | Citations
Rendered fromscDECO-Poisson-Gamma.Rmdusingknitr::rmarkdown

Last update: 2024-06-02
Started: 2024-05-01