humanHippocampus2024
This is the released version of humanHippocampus2024; for the devel version, see humanHippocampus2024.
Access to SRT and snRNA-seq data from spatial_HPC project
Bioconductor version: Release (3.23)
This is an ExperimentHub Data package that helps to access the spatially-resolved transcriptomics and single-nucleus RNA sequencing data. The datasets are generated from adjacent tissue sections of the anterior human hippocampus across ten adult neurotypical donors. The datasets are based on [spatial_hpc](https://github.com/LieberInstitute/spatial_hpc) project by Lieber Institute for Brain Development (LIBD) researchers and collaborators.
Author: Christine Hou [aut, cre]
Maintainer: Christine Hou <chris2018hou at gmail.com>
citation("humanHippocampus2024")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("humanHippocampus2024")
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("humanHippocampus2024")| humanHippocampus2024 Tutorial | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ExperimentData, ExperimentHub, ExpressionData, RNASeqData, SequencingData, SpatialData, Tissue |
| Version | 1.4.0 |
| License | Artistic-2.0 |
| Depends | R (>= 4.4) |
| Imports | ExperimentHub, SummarizedExperiment, SpatialExperiment |
| System Requirements | |
| URL | https://github.com/LieberInstitute/spatial_hpc https://christinehou11.github.io/humanHippocampus2024/ |
| Bug Reports | https://support.bioconductor.org/t/humanHippocampus2024 |
See More
| Suggests | testthat (>= 3.0.0), sessioninfo, rmarkdown, knitr, BiocStyle, ExperimentHubData, AnnotationHubData, RefManageR |
| 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 | humanHippocampus2024_1.4.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/humanHippocampus2024 |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/humanHippocampus2024 |
| Package Short Url | https://bioconductor.org/packages/humanHippocampus2024/ |
| Package Downloads Report | Download Stats |