projectOntoMGS

genebag

: this is the structured MGS information formatted as a list of geneids each corresponding to an MGS

list.mgs

: the filtering method, either 'perc' or 'size', default will be size.
perc : genes projected onto mgs are only kept if they exceed a threshold percentage of the mgs size
size : genes projected onto mgs are only kept if they exceed a threshold number of genes

res.filt.mode

: the threshold used to retain an mgs according to the filtering mode, either 'perc' or 'size'
if 'perc' : the minimal percentage of genes projected onto mgs (number of genes projected / mgs size) needed to select a mgs
if 'size' : the minimal number of genes projected onto mgs

res.filt.threshold

: whether a last genebag containing not projected genes is to be added to the list of selected mgs

not_projected


This function takes a list of genes and projects it to a mgs catalogue


'MetaOMineR' suite is a set of R packages that offers many functions and modules needed for the analyses
of quantitative metagenomics data. 'momr' is the core package and contains routines for biomarker identification and exploration.
Developed since the beginning of field, 'momr' has evolved and is structured around the different modules
such as preprocessing, analysis, vizualisation, etc. See package help for more information.

projectOntoMGS: projectOntoMGS

Description

Usage

Arguments

Value

Details