Package: mire 0.0.1.9000

Yun Peng

mire: Microbiome Integrated Reconstruction and Estimation

An integrated framework for microbiome reconstruction from sequencing data. It leverages tools like Kraken2 for taxonomic classification and combines cell barcodes, UMIs, and k-mer-based quantification to reconstruct microbial signals. Designed for both bulk and single-cell sequencing data, the package enables taxonomic and quantitative profiling of microbial communities.

Authors:Yun Peng [aut, cre]

mire_0.0.1.9000.tar.gz
mire_0.0.1.9000.zip(r-4.7-x86_64)mire_0.0.1.9000.zip(r-4.6-x86_64)mire_0.0.1.9000.zip(r-4.5-x86_64)
mire_0.0.1.9000.tgz(r-4.6-x86_64)mire_0.0.1.9000.tgz(r-4.6-arm64)mire_0.0.1.9000.tgz(r-4.5-x86_64)mire_0.0.1.9000.tgz(r-4.5-arm64)
mire_0.0.1.9000.tar.gz(r-4.7-arm64)mire_0.0.1.9000.tar.gz(r-4.7-x86_64)mire_0.0.1.9000.tar.gz(r-4.6-arm64)mire_0.0.1.9000.tar.gz(r-4.6-x86_64)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
mire/json (API)

# Install 'mire' in R:
install.packages('mire', repos = c('https://wanglabcsu.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/wanglabcsu/mire/issues

On CRAN:

Conda:

rustcargo

2.60 score 4 stars 3 scripts 16 exports 19 dependencies

Last updated from:dd6dbe6018. Checks:8 WARNING, 1 OK, 4 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64WARNING191
linux-devel-x86_64WARNING174
source / vignettesOK186
linux-release-arm64WARNING161
linux-release-x86_64WARNING180
macos-release-arm64WARNING130
macos-release-x86_64WARNING296
macos-oldrel-arm64WARNING142
macos-oldrel-x86_64WARNING345
windows-devel-x86_64FAIL153
windows-release-x86_64FAIL166
windows-oldrel-x86_64FAIL179
wasm-releaseFAIL115

Exports:blsddenoise_countsembedembed_trimkoutreadskractor_koutputkractor_readskraken2krcountread_kreportrpmm_quantileseq_rangeseq_refineslsdtagtrim

Dependencies:clicpp11farverggplot2gluegtableisobandlabelinglifecyclemirainanonextR6RColorBrewerrlangS7scalesvctrsviridisLitewithr