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DeconvoBuddies
This is thereleased version of DeconvoBuddies; for the devel version, seeDeconvoBuddies.
Helper Functions for LIBD Deconvolution
Bioconductor version: Release (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("DeconvoBuddies")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("DeconvoBuddies")For older versions of R, please refer to the appropriateBioconductor 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 | 1.2.0 |
| In Bioconductor since | BioC 3.21 (R-4.5) (0.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.4.0) |
| Imports | AnnotationHub,BiocFileCache,DelayedMatrixStats,dplyr,ExperimentHub,ggplot2, graphics, grDevices,MatrixGenerics, 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,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
FollowInstallation instructions to use this package in your R session.
| Source Package | DeconvoBuddies_1.2.0.tar.gz |
| Windows Binary (x86_64) | DeconvoBuddies_1.2.0.zip |
| macOS Binary (x86_64) | DeconvoBuddies_1.2.0.tgz |
| macOS Binary (arm64) | DeconvoBuddies_1.2.0.tgz |
| 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 |