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This is the development version of scRecover; for the stable release version, see scRecover.
Bioconductor version: Development (3.17)
scRecover is an R package for imputation of single-cell RNA-seq (scRNA-seq) data. It will detect and impute dropout values in a scRNA-seq raw read counts matrix while keeping the real zeros unchanged, since there are both dropout zeros and real zeros in scRNA-seq data. By combination with scImpute, SAVER and MAGIC, scRecover not only detects dropout and real zeros at higher accuracy, but also improve the downstream clustering and visualization results.
Author: Zhun Miao, Xuegong Zhang <zhangxg at tsinghua.edu.cn>
Maintainer: Zhun Miao <miaoz13 at tsinghua.org.cn>
Citation (from within R,
enter citation("scRecover")
):
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("scRecover")
For older versions of R, please refer to the appropriate Bioconductor release.
Reference Manual |
biocViews | GeneExpression, Preprocessing, RNASeq, Sequencing, SingleCell, Software, Transcriptomics |
Version | 1.15.0 |
In Bioconductor since | BioC 3.9 (R-3.6) (3.5 years) |
License | GPL |
Depends | R (>= 3.4.0) |
Imports | stats, utils, methods, graphics, doParallel, foreach, parallel, penalized, kernlab, rsvd, Matrix (>= 1.2-14), MASS (>= 7.3-45), pscl (>= 1.4.9), bbmle (>= 1.0.18), gamlss (>= 4.4-0), preseqR (>= 4.0.0), SAVER (>= 1.1.1), Rmagic (>= 1.3.0), BiocParallel(>= 1.12.0) |
LinkingTo | |
Suggests | knitr, rmarkdown, SingleCellExperiment, testthat |
SystemRequirements | |
Enhances | |
URL | https://miaozhun.github.io/scRecover |
BugReports | https://github.com/miaozhun/scRecover/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/scRecover |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/scRecover |
Package Short Url | https://bioconductor.org/packages/scRecover/ |
Package Downloads Report | Download Stats |
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