NEBULA v1.5.8 | Overview | Installation | Most recent version | Functions | Basic usage | Example | Specifying scaling factors | Using Seurat/SingleCellExperiment Objects | Difference between NEBULA-LN and NEBULA-HL | Filtering low-expression genes | Checking convergence for the summary statistics and quality control | Using other mixed models | Special attention paid to testing subject-level variables | Testing contrasts | Extracting marginal and conditional Pearson residuals | Parallel computing | References
Package: nebula 1.5.8
nebula: Negative Binomial Mixed Models Using Large-Sample Approximation for Differential Expression Analysis of ScRNA-Seq Data
A fast negative binomial mixed model for conducting association analysis of multi-subject single-cell data. It can be used for identifying marker genes, differential expression and co-expression analyses. The model includes subject-level random effects to account for the hierarchical structure in multi-subject single-cell data. See He et al. (2021) <doi:10.1038/s42003-021-02146-6>.
Authors:
nebula_1.5.8.tar.gz
nebula_1.5.8.zip(r-4.7-x86_64)nebula_1.5.8.zip(r-4.7-arm64)nebula_1.5.8.zip(r-4.6-x86_64)nebula_1.5.8.zip(r-4.6-arm64)nebula_1.5.8.zip(r-4.5-x86_64)
nebula_1.5.8.tgz(r-4.6-x86_64)nebula_1.5.8.tgz(r-4.6-arm64)nebula_1.5.8.tgz(r-4.5-x86_64)nebula_1.5.8.tgz(r-4.5-arm64)
nebula_1.5.8.tar.gz(r-4.7-arm64)nebula_1.5.8.tar.gz(r-4.7-x86_64)nebula_1.5.8.tar.gz(r-4.6-arm64)nebula_1.5.8.tar.gz(r-4.6-x86_64)
nebula_1.5.8.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
nebula/json (API)
| # Install 'nebula' in R: |
| install.packages('nebula', repos = c('https://lhe17.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/lhe17/nebula/issues
Datasets:
- sample_data - An example data set for testing nebula
Last updated from:70593f9534. Checks:15 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-arm64 | OK | 192 | ||
| linux-devel-x86_64 | OK | 194 | ||
| source / vignettes | OK | 240 | ||
| linux-release-arm64 | OK | 233 | ||
| linux-release-x86_64 | OK | 228 | ||
| macos-release-arm64 | OK | 179 | ||
| macos-release-x86_64 | OK | 344 | ||
| macos-oldrel-arm64 | OK | 177 | ||
| macos-oldrel-x86_64 | OK | 335 | ||
| windows-devel-arm64 | OK | 307 | ||
| windows-devel-x86_64 | OK | 248 | ||
| windows-release-arm64 | OK | 262 | ||
| windows-release-x86_64 | OK | 195 | ||
| windows-oldrel-x86_64 | OK | 193 | ||
| wasm-release | OK | 133 |
Exports:group_cellload_sample_seuratnbresidualnebulascToNeb
Dependencies:codetoolsdigestdoFuturedoRNGforeachfuturefuture.applyglobalsiteratorslatticelistenvMatrixnloptrparallellyRcppRcppArmadilloRcppEigenRcppParallelRfastrngtoolstrustzigg
