MerfishData
Collection of public MERFISH datasets
Bioconductor version: 3.23 · Package version: 1.14.1
MerfishData is an ExperimentHub package that serves publicly available datasets obtained with Multiplexed Error-Robust Fluorescence in situ Hybridization (MERFISH). MERFISH is a massively multiplexed single-molecule imaging technology capable of simultaneously measuring the copy number and spatial distribution of hundreds to tens of thousands of RNA species in individual cells. The scope of the package is to provide MERFISH data for benchmarking and analysis.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MerfishData") Details
| Maintainer | Ludwig Geistlinger <ludwig_geistlinger@hms.harvard.edu> |
| Author | Ludwig Geistlinger [aut, cre] (ORCID: <https://orcid.org/0000-0002-2495-5464>), Tyrone Lee [ctb], Helena Crowell [ctb] (ORCID: <https://orcid.org/0000-0002-4801-1767>), Daniela Corbetta [ctb], Jeffrey Moffitt [aut], Robert Gentleman [aut] |
| License | Artistic-2.0 |
| URL | https://github.com/ccb-hms/MerfishData |
| Bug Reports | https://github.com/ccb-hms/MerfishData/issues |
| Downloads rank | 119 |
| Source branch | RELEASE_3_23 |
| biocViews | ExperimentData, ExperimentHub, ExpressionData, HighThroughputImagingData, Mus_musculus_Data, SingleCellData, SpatialData |
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Dependencies
Depends: R (>= 4.2.0), EBImage, SpatialExperiment
Imports: grDevices, AnnotationHub, BumpyMatrix, ExperimentHub, S4Vectors, SingleCellExperiment, SummarizedExperiment, HDF5Array
Suggests: grid, ggplot2, ggpubr, knitr, rmarkdown, scater, scattermore, terra, testthat, BiocStyle, DropletUtils
Reverse dependencies
Suggests Me (1): scConform