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Bioconductor - DeconvoBuddies (development version)

DeconvoBuddies

This is the development version of DeconvoBuddies; for the stable release version, see DeconvoBuddies.

Helper Functions for LIBD Deconvolution

Bioconductor version: Development (3.22)

Funtions 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] ORCID: 0000-0001-5148-3602 , Leonardo Collado-Torres [ctb] ORCID: 0000-0003-2140-308X

Maintainer: Louise Huuki-Myers <lahuuki at gmail.com>

Citation (from within R, enter citation("DeconvoBuddies")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")
Details biocViews ExperimentHubSoftware, GeneExpression, RNASeq, SingleCell, Software, Transcriptomics Version 1.1.0 In Bioconductor since BioC 3.21 (R-4.5) (< 6 months) License Artistic-2.0 Depends R (>= 4.4.0) Imports AnnotationHub, BiocFileCache, dplyr, ExperimentHub, ggplot2, graphics, grDevices, matrixStats, methods, purrr, rafalib, reshape2, S4Vectors, scran, SingleCellExperiment, spatialLIBD, stats, stringr, SummarizedExperiment, tibble, utils System Requirements URL https://github.com/lahuuki/DeconvoBuddies Bug Reports https://github.com/LieberInstitute/DeconvoBuddies/issues See More Suggests Biobase, BiocStyle, BisqueRNA, 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 Package Archives

Follow Installation instructions to use this package in your R session.

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