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HCATonsilData
This is thereleased version of HCATonsilData; for the devel version, seeHCATonsilData.
Provide programmatic access to the tonsil cell atlas datasets
Bioconductor version: Release (3.22)
This package provides access to the scRNA-seq, scATAC-seq, multiome, CITE-seq and spatial transcriptomics (Visium) data generated by the tonsil cell atlas in the context of the Human Cell Atlas (HCA). The data is provided via the Bioconductor project in the form of SingleCellExperiments. Additionally, information on the whole compendium of identified cell types is provided in form of a glossary.
Author: Ramon Massoni-Badosa [aut, cre]
ORCID: 0000-0001-7115-8145, Federico Marini [aut] ORCID: 0000-0003-3252-7758, Alan O'Callaghan [aut], Helena L. Crowell [aut] ORCID: 0000-0002-4801-1767
Maintainer: Ramon Massoni-Badosa <ramonmassoni at gmail.com>
citation("HCATonsilData")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("HCATonsilData")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("HCATonsilData")| HCATonsilData | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | ExperimentData,ExperimentHub,ExpressionData,RNASeqData,SingleCellData,SpatialData |
| Version | 1.8.0 |
| License | MIT + fileLICENSE |
| Depends | R (>= 4.3.0) |
| Imports | ExperimentHub,SingleCellExperiment,SpatialExperiment,HDF5Array,SummarizedExperiment,S4Vectors,htmltools,rmarkdown,base64enc, utils |
| System Requirements | |
| URL | https://github.com/massonix/HCATonsilData |
| Bug Reports | https://github.com/massonix/HCATonsilData/issues |
See More
| Suggests | knitr,ggplot2,testthat (>= 3.0.0),scater,Seurat,Signac,zellkonverter,iSEE,ggspavis,kableExtra,BiocStyle |
| 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 | HCATonsilData_1.8.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/HCATonsilData |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HCATonsilData |
| Package Short Url | https://bioconductor.org/packages/HCATonsilData/ |
| Package Downloads Report | Download Stats |