https://github.com/bioconductor-source/zinbwave
Science Score: 23.0%
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✓Academic publication links
Links to: nature.com -
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○Scientific vocabulary similarity
Low similarity (12.1%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: bioconductor-source
- Language: R
- Default Branch: devel
- Size: 210 KB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
zinbwave
Zero-inflated Negative Binomial based Wanted Variation Extraction (ZINB-WaVE)
This package implements a zero-inflated negative binomial model for single-cell RNA-seq data, with latent factors.
The model is described in details in the paper:
Installation
Since Bioconductor 3.7 the new recommended way to install Bioconductor packages is via the BiocManager package, available on CRAN:
{r}
install.packages("BiocManager")
BiocManager::install("zinbwave")
Note that zinbwave requires R (>=3.4) and Bioconductor (>=3.6).
In virtually all cases, installing from Bioconductor is recommended. However, if you want to install the development version of zinbwave from GitHub, you can do so with the following.
{r}
library(devtools)
install_github("drisso/zinbwave")
Owner
- Name: (WIP DEV) Bioconductor Packages
- Login: bioconductor-source
- Kind: organization
- Email: maintainer@bioconductor.org
- Website: https://bioconductor.org
- Repositories: 1
- Profile: https://github.com/bioconductor-source
Source code for packages accepted into Bioconductor
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Dependencies
- actions/cache v2 composite
- actions/checkout v2 composite
- actions/upload-artifact master composite
- docker/build-push-action v1 composite
- r-lib/actions/setup-pandoc master composite
- r-lib/actions/setup-r master composite
- R >= 3.4 depends
- SingleCellExperiment * depends
- SummarizedExperiment * depends
- methods * depends
- BiocParallel * imports
- Matrix * imports
- edgeR * imports
- genefilter * imports
- softImpute * imports
- stats * imports
- BiocStyle * suggests
- DESeq2 * suggests
- Rtsne * suggests
- biomaRt * suggests
- ggplot2 * suggests
- knitr * suggests
- magrittr * suggests
- matrixStats * suggests
- rmarkdown * suggests
- scRNAseq * suggests
- sparseMatrixStats * suggests
- testthat * suggests