Package: IgAScores 0.1.2.9000

IgAScores: Score Taxon-Level IgA Binding in IgA-Seq Experiments

Functions to calculate indices used to score immunoglobulin A (IgA) binding of bacteria in IgA sequencing (IgA-Seq) experiments. This includes the original Kau and Palm indices and more recent methods as described in Jackson et al. (2020) <doi:10.1101/2020.08.19.257501>. Additionally the package contains a function to simulate IgA-Seq data and an example experimental data set for method testing.

Authors:Matthew Jackson [aut, cre, cph]

IgAScores_0.1.2.9000.tar.gz
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IgAScores.pdf |IgAScores.html✨
IgAScores/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/microbialman/igascores/issues

Datasets:
  • oligoMeta - Metadata for the OligoMM12-Colitis experiment used as an example in the IgAScores package
  • oligoSpecies - Species level counts for the OligoMM12-Colitis experiment used as an example in the IgAScores package

On CRAN:

3.85 score 1 stars 14 scripts 127 downloads 1 mentions 8 exports 0 dependencies

Last updated 3 years agofrom:0e216b8280. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 04 2024
R-4.5-winOKNov 04 2024
R-4.5-linuxOKNov 04 2024
R-4.4-winOKNov 04 2024
R-4.4-macOKNov 04 2024
R-4.3-winOKNov 04 2024
R-4.3-macOKNov 04 2024

Exports:igaprobabilityigaprobabilityratioigascoreskauindexpalmindexrelabundsimulateigaseqtaxnamesplit

Dependencies:

The IgAScores Package

Matthew Jackson

Rendered fromIgAScores.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2020-08-21
Started: 2020-08-07