Bioconductor version: Release (3.16)
APL is a package developed for computation of Association Plots (AP), a method for visualization and analysis of single cell transcriptomics data. The main focus of APL is the identification of genes characteristic for individual clusters of cells from input data. The package performs correspondence analysis (CA) and allows to identify cluster-specific genes using Association Plots. Additionally, APL computes the cluster-specificity scores for all genes which allows to rank the genes by their specificity for a selected cell cluster of interest.
Author: Elzbieta Gralinska [cre, aut], Clemens Kohl [aut], Martin Vingron [aut]
Maintainer: Elzbieta Gralinska
Citation (from within R, entercitation("APL")
):
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("APL")
For older versions of R, please refer to the appropriateBioconductor release.
查看文档的版本包age installed in your system, start R and enter:
browseVignettes("APL")
HTML | R Script | Analyzing data with APL |
Reference Manual | ||
Text | NEWS |
biocViews | DimensionReduction,GeneExpression,RNASeq,Sequencing,SingleCell,Software,StatisticalMethod |
Version | 1.2.0 |
In Bioconductor since | BioC 3.15 (R-4.2) (0.5 years) |
License | GPL (>= 3) |
Depends | R (>= 4.2) |
Imports | reticulate,ggrepel,ggplot2,viridisLite,plotly,Seurat,SingleCellExperiment,magrittr,SummarizedExperiment,topGO, methods, stats, utils,org.Hs.eg.db,org.Mm.eg.db,rlang |
LinkingTo | |
Suggests | BiocStyle,knitr,rmarkdown,scRNAseq,scater,scran,testthat |
SystemRequirements | python, pytorch, numpy |
Enhances | |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow2021年欧洲杯比分预测 instructions to use this package in your R session.
Source Package | APL_1.2.0.tar.gz |
Windows Binary | APL_1.1.0.zip |
macOS Binary (x86_64) | APL_1.2.0.tgz |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/APL |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/APL |
Package Short Url | //www.andersvercelli.com/packages/APL/ |
Package Downloads Report | Download Stats |
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