Introduction | Installation | Processing overview of the scRNA-seq atlas | Atlas data format | Processed data access | Raw data access | Chimera data information | Background | Available datasets | snATAC-seq data information | seqFISH data information | 10X multiome data information | Accessory data information | Working with the data outside of Bioconductor and R | Session Information | References
Package: MouseGastrulationData 1.27.0
Jonathan Griffiths
MouseGastrulationData: Single-Cell -omics Data across Mouse Gastrulation and Early Organogenesis
Provides processed and raw count data for single-cell RNA sequencing, single-cell ATAC-seq, and seqFISH (spatial transcriptomic) experiments performed along a timecourse of mouse gastrulation and early organogenesis.
Authors:
MouseGastrulationData_1.27.0.tar.gz
MouseGastrulationData_1.27.0.tar.gz(r-4.7-any)MouseGastrulationData_1.27.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
MouseGastrulationData/json (API)
| # Install 'MouseGastrulationData' in R: |
| install.packages('MouseGastrulationData', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/marionilab/mousegastrulationdata/issues
On BioConductor:MouseGastrulationData-1.27.0(data/experiment 3.24)MouseGastrulationData-1.26.0(data/experiment 3.23)
experimentdataexpressiondatasequencingdatarnaseqdatasinglecelldataexperimenthubmus_musculus_datadatapkg
Last updated from:729ee391be. Checks:3 NOTE, 1 OK. Indexed: yes.
This is a data package. Data packages may be large and do not get checked across all platforms.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 179 | ||
| linux-devel | NOTE | 462 | ||
| source / vignettes | OK | 302 | ||
| linux-release | NOTE | 492 |
Exports:AtlasSampleMetadataBPSATACDataEmbryoAtlasDataEmbryoCelltypeColoursGuibentifExtraDataLohoffSeqFISHDataRAMultiomeDataRASampleMetadataTal1ChimeraDataTChimeraDataWTChimeraData
Dependencies:abindAnnotationDbiAnnotationHubaskpassBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocManagerBiocVersionBiostringsbitbit64blobBumpyMatrixcachemclicpp11crayoncurlDBIdbplyrDelayedArraydplyrExperimentHubfastmapfilelockgenericsGenomicRangesgluehttrhttr2IRangesjsonliteKEGGRESTlatticelifecyclemagickmagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigpngpurrrR6rappdirsRcpprjsonrlangRSQLiteS4ArraysS4VectorsSeqinfoSingleCellExperimentSparseArraySpatialExperimentstringistringrSummarizedExperimentsystibbletidyrtidyselectutf8vctrswithrXVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Single-Cell -omics Data across Mouse Gastrulation and Early Organogenesis | MouseGastrulationData-package MouseGastrulationData |
| Sample metadata from the Pijuan-Sala et al. embryo atlas | AtlasSampleMetadata |
| E8.25 snATAC-seq data | BPSATACData |
| Mouse gastrulation timecourse data | EmbryoAtlasData |
| Celltype colours from Pijuan-Sala et al. | EmbryoCelltypeColours |
| Guibentif et al. accessory data | GuibentifExtraData |
| seqFISH data of E8.5 mouse embryos | LohoffSeqFISHData |
| Mouse gastrulation joint ATAC/RNA data | RAMultiomeData |
| Sample metadata from the Argelaguet et al. multiome atlas | RASampleMetadata |
| Tal1 chimera data | Tal1ChimeraData |
| T chimera data | TChimeraData |
| WT chimera data | WTChimeraData |