permubiome: A Permutation Based Test for Biomarker Discovery in Microbiome Data

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All the functions compiled in this package were created to perform permutation-based non-parametric analysis on microbiome data for biomarker discovery aims. This test executes thousands of comparisons in pairwise manner, after random shuffling of data into the different groups of study.

Author
Alfonso Benitez-Paez
Date of publication
2016-03-23 00:34:11
Maintainer
Alfonso Benitez-Paez <abenitez@iata.csic.es>
License
GPL-2
Version
1.1

View on CRAN

Man pages

get.data
Parsing the data file.
normalize
Normalize the microbiome dataset prior to perform the...
permubiome
\Sexpr[results=rd,stage=build]{tools:::Rd_package_title("permubiome")}
permutation
Permutation-based non-parametric analysis to infer...
plots
Plotting the features with differential abundance.

Files in this package

permubiome
permubiome/inst
permubiome/inst/extdat
permubiome/inst/extdat/DATA_2
permubiome/inst/extdat/DATA_1
permubiome/NAMESPACE
permubiome/R
permubiome/R/get.data.R
permubiome/R/plots.R
permubiome/R/permutation.R
permubiome/R/normalize.R
permubiome/MD5
permubiome/build
permubiome/build/partial.rdb
permubiome/DESCRIPTION
permubiome/man
permubiome/man/get.data.Rd
permubiome/man/permubiome.Rd
permubiome/man/plots.Rd
permubiome/man/permutation.Rd
permubiome/man/normalize.Rd