cmdArgsToVariables      Create R variables from command line parameters
collapseRepliCounts     Collapse multiple technical replicate count
                        columns into two columns for plotting
compbiasPlot            plot the compositional bias for the
                        sub-taxinomic rank
compbiasTest            compositional bias test
generateWeights         Generate Weights
in2manta                Convert a count or alignment table into a MANTA
                        object
makeSampleDF            Make a Sample Dataframe for use in Initializing
                        a MANTA object
manta                   Create a MANTA object
manta-class             Microbial Assemblage Normalized Transcript
                        Analysis - class
meta2counts             Convert a manta object's meta slot data into
                        counts
metataxa2subcounts      create a new (sub) count table out of a
                        subcomponent of the metatranscriptome
nf2nr                   convert the normalization factors to a
                        normalization line
normfact2absTMM         Convert a count or alignment table into a MANTA
                        object
nr                      Print out all the normalization ratios for each
                        subset in a specified taxinomic rank of a manta
                        object
outGenes                find the most significant or highest fold
                        change outlier genes
plot.manta              Plot a MAnTA object
pplacer2manta           convert a pplacer taxinomic placement
                        repository to a MANTA object
readSeastar             Read SEAStAR output format
seastar2counts          Convert seastar output to count data
summary.manta           Summarize a MANTA object
