Package 'metagenomeSeq' - Bioconductor

38 plotGenusplotGenusBasic plot function of the raw or normalized data.DescriptionThis function plots the abundance of a particular OTU by class. The function uses the estimatedposterior probabilities to make technical zeros transparent.UsageplotGenus(obj, otuIndex, classIndex, log = TRUE, norm = TRUE,no = 1:length(otuIndex), labs = TRUE, xlab = NULL, ylab = NULL,jitter = TRUE, jitter.factor = 1, pch = 21, ret = FALSE, ...)ArgumentsobjAn MRexperiment object with count data.otuIndex A list of the otus with the same annotation.classIndex A list of the samples in their respective groups.logWhether or not to log2 transform the counts - if MRexperiment object.normWhether or not to normalize the counts - if MRexperiment object.noWhich of the otuIndex to plot.jitter.factor Factor value for jitterpchStandard pch value for the plot command.labsWhether to include group labels or not. (TRUE/FALSE)xlabxlabel for the plot.ylabylabel for the plot.jitter Boolean to jitter the count data or not.retBoolean to return the observed data that would have been plotted.... Additional plot arguments.ValueNASee AlsocumNorm