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.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-devel (arm64): rsahmi_0.0.2.tgz, r-release (arm64): rsahmi_0.0.2.tgz, r-oldrel (arm64): rsahmi_0.0.2.tgz, r-devel (x86_64): 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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