DOI: 10.18129/B9.bioc.mbQTL  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see mbQTL.

mbQTL: A package for SNP-Taxa mGWAS analysis

Bioconductor version: 3.17

mbQTL is a statistical R package for simultaneous 16srRNA,16srDNA (microbial) and variant, SNP, SNV (host) relationship, correlation, regression studies. We apply linear, logistic and correlation based statistics to identify the relationships of taxa, genus, species and variant, SNP, SNV in the infected host. We produce various statistical significance measures such as P values, FDR, BC and probability estimation to show significance of these relationships. Further we provide various visualization function for ease and clarification of the results of these analysis. The package is compatible with dataframe, MRexperiment and text formats.

Author: Mercedeh Movassagh [aut, cre] , Steven Schiff [aut], Joseph N Paulson [aut]

Maintainer: Mercedeh Movassagh <mercedeh.movassagh at yale.edu>

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biocViews Metagenomics, Microbiome, Regression, SNP, Software, StatisticalMethod, WholeGenome
Version 1.0.0
In Bioconductor since BioC 3.17 (R-4.3) (< 6 months)
License MIT + file LICENSE
Depends R (>= 4.3.0)
Imports MatrixEQTL, dplyr, ggplot2, readxl, stringr, tidyr, metagenomeSeq, pheatmap, broom, graphics, stats, methods
Suggests knitr, rmarkdown, BiocStyle
URL "https://github.com/Mercedeh66/mbQTL"
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Source Package mbQTL_1.0.0.tar.gz
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