DeconvoBuddies
Helper Functions for LIBD Deconvolution
Bioconductor version: 3.23 · Package version: 1.4.0
Functions helpful for LIBD deconvolution project. Includes tools for marker finding with mean ratio, expression plotting, and plotting deconvolution results. Working to include DLPFC datasets.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DeconvoBuddies")Details
| Maintainer | Louise Huuki-Myers <lahuuki@gmail.com> |
| Author | Louise Huuki-Myers [aut, cre] (ORCID: <https://orcid.org/0000-0001-5148-3602>), Leonardo Collado-Torres [ctb] (ORCID: <https://orcid.org/0000-0003-2140-308X>), Nicholas J. Eagles [ctb] (ORCID: <https://orcid.org/0000-0002-9808-5254>) |
| License | Artistic-2.0 |
| URL | https://github.com/LieberInstitute/DeconvoBuddies |
| Bug Reports | https://github.com/LieberInstitute/DeconvoBuddies/issues |
| Downloads rank | 179 |
| Source branch | RELEASE_3_23 |
| biocViews | ExperimentHubSoftware, GeneExpression, RNASeq, SingleCell, Software, Transcriptomics |
Documentation
- Deconvolution Benchmark in Human DLPFC
- Finding Marker Genes with DeconvoBuddies
- Get Started with DeconvoBuddies
Download
Dependencies
Depends: R (>= 4.4.0)
Imports: AnnotationHub, BiocFileCache, BiocParallel, DelayedMatrixStats, dplyr, ExperimentHub, ggplot2, ggrepel, graphics, grDevices, MatrixGenerics, methods, purrr, rafalib, reshape2, S4Vectors, scran, SingleCellExperiment, spatialLIBD, stats, stringr, SummarizedExperiment, tibble, utils
Suggests: Biobase, BiocStyle, covr, HDF5Array, knitr, RColorBrewer, RefManageR, rmarkdown, sessioninfo, testthat (>= 3.0.0), tidyr, tidyverse