rsahmi
Single-Cell Analysis of Host-Microbiome Interactions
Description
A computational resource designed to accurately detect microbial nucleic acids while filtering out contaminants and false-positive taxonomic assignments from standard transcriptomic sequencing of mammalian tissues. For more details, see Ghaddar (2023) <doi:10.1038/s43588-023-00507-1>. This implementation leverages the 'polars' package for fast and systematic microbial signal recovery and denoising from host tissue genomic sequencing.
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CRAN Check Status
Show all 11 flavors
| 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 | OK |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
Check details (15 non-OK)
package dependencies
Package required but not available: ‘ShortRead’ Package suggested but not available for checking: ‘polars’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
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Rd cross-references
Package unavailable to check Rd xrefs: ‘polars’
installed package size
installed size is 5.0Mb
sub-directories of 1Mb or more:
extdata 4.8Mb
package dependencies
Package suggested but not available for checking: ‘polars’
Rd cross-references
Package unavailable to check Rd xrefs: ‘polars’
installed package size
installed size is 5.0Mb
sub-directories of 1Mb or more:
extdata 4.8Mb
package dependencies
Package suggested but not available for checking: ‘polars’
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Check History
ERROR 8 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Mar 9, 2026
package dependencies
Package required but not available: ‘ShortRead’ Package suggested but not available for checking: ‘polars’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
package dependencies
Package suggested but not available for checking: ‘polars’
package dependencies
Package suggested but not available for checking: ‘polars’