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]
, Leonardo Collado-Torres [ctb]
Maintainer: Louise Huuki-Myers <lahuuki at gmail.com>
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")| Deconvolution Benchmark in Human DLPFC | HTML | R Script |
| Finding Marker Genes with DeconvoBuddies | HTML | R Script |
| Get Started with DeconvoBuddies | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
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.
| Source Package | DeconvoBuddies_1.1.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | DeconvoBuddies_1.1.0.tgz |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/DeconvoBuddies |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/DeconvoBuddies |
| Bioc Package Browser | https://code.bioconductor.org/browse/DeconvoBuddies/ |
| Package Short Url | https://bioconductor.org/packages/DeconvoBuddies/ |
| Package Downloads Report | Download Stats |