rsahmi: Single-Cell Analysis of Host-Microbiome Interactions
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.
| Version: | 0.0.2 |
| Imports: | blit (≥ 0.1.0), cli, rlang (≥ 1.1.0), ShortRead, utils |
| Suggests: | polars (≥ 0.17.0) |
| OS_type: | unix |
| Published: | 2025-03-24 |
| DOI: | 10.32614/CRAN.package.rsahmi |
| Author: | Yun Peng  [aut,
cre] |
| Maintainer: | Yun Peng <yunyunp96 at 163.com> |
| BugReports: | https://github.com/Yunuuuu/rsahmi/issues |
| License: | MIT + file LICENSE |
| URL: | https://github.com/Yunuuuu/rsahmi |
| NeedsCompilation: | no |
| SystemRequirements: | kraken2, seqkit |
| Additional_repositories: | https://community.r-multiverse.org |
| Materials: | NEWS |
| CRAN checks: | rsahmi results |
Documentation:
| Reference manual: | rsahmi.html , rsahmi.pdf |
Downloads:
| Package source: | rsahmi_0.0.2.tar.gz |
| Windows binaries: | r-devel: not available, r-release: not available, r-oldrel: not available |
| macOS binaries: | r-release (arm64): rsahmi_0.0.2.tgz, r-oldrel (arm64): rsahmi_0.0.2.tgz, r-release (x86_64): rsahmi_0.0.2.tgz, r-oldrel (x86_64): rsahmi_0.0.2.tgz |
Linking:
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