DeconvoBuddies
This is the released version of DeconvoBuddies; for the devel version, see DeconvoBuddies.
Helper Functions for LIBD Deconvolution
Bioconductor version: Release (3.23)
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.
Author: Louise Huuki-Myers [aut, cre] 
, Leonardo Collado-Torres [ctb] , Nicholas J. Eagles [ctb]
Maintainer: Louise Huuki-Myers <lahuuki at gmail.com>
citation("DeconvoBuddies")):Louise Huuki-Myers. DeconvoBuddies: Helper Functions for LIBD Deconvolution. doi:10.18129/B9.bioc.DeconvoBuddies, R package version 1.4.0, https://bioconductor.org/packages/DeconvoBuddies.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DeconvoBuddies")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DeconvoBuddies")| Get Started with DeconvoBuddies | HTML | R Script |
| Deconvolution Benchmark in Human DLPFC | HTML | R Script |
| Finding Marker Genes with DeconvoBuddies | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ExperimentHubSoftware, GeneExpression, RNASeq, SingleCell, Software, Transcriptomics |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.21 (R-4.5) (1.5 years) |
| License | Artistic-2.0 |
| 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 |
| System Requirements | |
| URL | https://github.com/LieberInstitute/DeconvoBuddies |
| Bug Reports | https://github.com/LieberInstitute/DeconvoBuddies/issues |
See More
| Suggests | Biobase, BiocStyle, covr, HDF5Array, knitr, RColorBrewer, RefManageR, rmarkdown, sessioninfo, testthat (>= 3.0.0), tidyr, tidyverse |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | DeconvoBuddies_1.4.0.tar.gz |
| Windows Binary (x86_64) | DeconvoBuddies_1.4.0.zip |
| macOS Binary (big-sur-x86_64) | DeconvoBuddies_1.4.0.tgz |
| macOS Binary (sonoma-arm64) | DeconvoBuddies_1.4.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/DeconvoBuddies |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/DeconvoBuddies |
| Package Short Url | https://bioconductor.org/packages/DeconvoBuddies/ |
| Package Downloads Report | Download Stats |