EWCE
Expression Weighted Celltype Enrichment
Bioconductor version: 3.23 · Package version: 1.20.0
Used to determine which cell types are enriched within gene lists. The package provides tools for testing enrichments within simple gene lists (such as human disease associated genes) and those resulting from differential expression studies. The package does not depend upon any particular Single Cell Transcriptome dataset and user defined datasets can be loaded in and used in the analyses.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("EWCE") Details
| Maintainer | Hiranyamaya Dash <hdash.work@gmail.com> |
| Author | Alan Murphy [aut] (ORCID: <https://orcid.org/0000-0002-2487-8753>), Brian Schilder [aut] (ORCID: <https://orcid.org/0000-0001-5949-2191>), Hiranyamaya Dash [cre] (ORCID: <https://orcid.org/0009-0005-5514-505X>), Nathan Skene [aut] (ORCID: <https://orcid.org/0000-0002-6807-3180>) |
| License | GPL-3 |
| URL | https://github.com/NathanSkene/EWCE |
| Bug Reports | https://github.com/NathanSkene/EWCE/issues |
| Downloads rank | 438 |
| Source branch | RELEASE_3_23 |
| biocViews | BiomedicalInformatics, DifferentialExpression, FunctionalGenomics, GeneExpression, GeneSetEnrichment, Genetics, Microarray, OneChannel, Proteomics, RNASeq, SingleCell, Software, Transcription, Visualization, mRNAMicroarray |
Documentation
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Dependencies
Depends: R (>= 4.2), RNOmni (>= 1.0)
Imports: stats, utils, methods, ewceData (>= 1.7.1), dplyr, ggplot2, reshape2, limma, stringr, HGNChelper, Matrix, parallel, SingleCellExperiment, SummarizedExperiment, DelayedArray, BiocParallel, orthogene (>= 0.99.8), data.table
Suggests: rworkflows, remotes, knitr, BiocStyle, rmarkdown, testthat (>= 3.0.0), readxl, memoise, markdown, sctransform, DESeq2, MAST, DelayedMatrixStats, ggdendro, scales, patchwork