CAESAR.Suite
CAESAR: a Cross-Technology and Cross-Resolution Framework for Spatial Omics Annotation
Description
Biotechnology in spatial omics has advanced rapidly over the past few years, enhancing both throughput and resolution. However, existing annotation pipelines in spatial omics predominantly rely on clustering methods, lacking the flexibility to integrate extensive annotated information from single-cell RNA sequencing (scRNA-seq) due to discrepancies in spatial resolutions, species, or modalities. Here we introduce the CAESAR suite, an open-source software package that provides image-based spatial co-embedding of locations and genomic features. It uniquely transfers labels from scRNA-seq reference, enabling the annotation of spatial omics datasets across different technologies, resolutions, species, and modalities, based on the conserved relationship between signature genes and cells/locations at an appropriate level of granularity. Notably, CAESAR enriches location-level pathways, allowing for the detection of gradual biological pathway activation within spatially defined domain types. More details on the methods related to our paper currently under submission. A full reference to the paper will be provided in future versions once the paper is published.
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| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | ERROR |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | ERROR |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | ERROR |
| r-oldrel-macos-x86_64 | NOTE |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (14 non-OK)
package dependencies
Packages required but not available: 'ProFAST', 'scater' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
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package dependencies
Package required but not available: ‘ProFAST’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
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package dependencies
Package required but not available: ‘scater’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
installed package size
installed size is 7.4Mb
sub-directories of 1Mb or more:
data 1.4Mb
libs 5.5Mb
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Check History
ERROR 10 OK · 1 NOTE · 0 WARNING · 3 ERROR · 0 FAILURE Mar 9, 2026
package dependencies
Packages required but not available: 'ProFAST', 'scater' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
package dependencies
Package required but not available: ‘ProFAST’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
package dependencies
Package required but not available: ‘scater’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
installed package size
installed size is 7.4Mb
sub-directories of 1Mb or more:
data 1.4Mb
libs 5.5Mb