NMIT
Aubrey R. Odom
Program in Bioinformatics, Boston University, Boston, MAaodom@bu.edu
January 30, 2024
NMIT.Rmd
Nonparametric microbial interdependence test (NMIT)
This tutorial will describe the NMIT function.
Citations:
Yilong Zhang, Sung Won Han, Laura M Cox, and Huilin Li. A multivariate distance-based analytic framework for microbial interdependence association test in longitudinal study. Genetic epidemiology, 41(8):769–778, 2017. doi:10.1002/gepi.22065.
Bokulich, Nicholas A., et al. “q2-longitudinal: longitudinal and paired-sample analyses of microbiome data.” MSystems 3.6 (2018): 10-1128.
Session Info
## R version 4.3.1 (2023-06-16)
## Platform: x86_64-pc-linux-gnu (64-bit)
## Running under: AlmaLinux 8.9 (Midnight Oncilla)
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## Matrix products: default
## BLAS: /share/pkg.8/r/4.3.1/install/lib64/R/lib/libRblas.so
## LAPACK: /share/pkg.8/r/4.3.1/install/lib64/R/lib/libRlapack.so; LAPACK version 3.11.0
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## locale:
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## [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
## [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
## [9] LC_ADDRESS=C LC_TELEPHONE=C
## [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
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## time zone: America/New_York
## tzcode source: system (glibc)
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## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
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## other attached packages:
## [1] BiocStyle_2.28.0
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## loaded via a namespace (and not attached):
## [1] vctrs_0.6.5 cli_3.6.2 knitr_1.45
## [4] rlang_1.1.3 xfun_0.41 stringi_1.8.3
## [7] purrr_1.0.2 textshaping_0.3.6 jsonlite_1.8.8
## [10] glue_1.7.0 htmltools_0.5.7 ragg_1.2.5
## [13] sass_0.4.8 rmarkdown_2.25 evaluate_0.23
## [16] jquerylib_0.1.4 fastmap_1.1.1 yaml_2.3.8
## [19] lifecycle_1.0.4 memoise_2.0.1 bookdown_0.34
## [22] BiocManager_1.30.22 stringr_1.5.1 compiler_4.3.1
## [25] fs_1.6.3 rstudioapi_0.15.0 systemfonts_1.0.4
## [28] digest_0.6.34 R6_2.5.1 magrittr_2.0.3
## [31] bslib_0.6.1 tools_4.3.1 pkgdown_2.0.7
## [34] cachem_1.0.8 desc_1.4.3