Summarizing OTU Table Regarding the Composition, Abundance and Beta Diversity of Abundant and Rare Biospheres

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Documentation for package ‘otuSummary’ version 0.1.2

• DESCRIPTION file.

Help Pages

alphaDiversity	Calculate the alpha diversity indices
bplot	Generate barplot with custom controls on the x axis labels
calc_bc	calculate the Bray-Curtis dissimilarity
contrib	Contribution of rare/abundant biosphere to the total Bray-Curtis dissimilarity
fillTax	reshape the heirarchical taxonomy
fillTax2	reshape the heirarchical taxonomy
matrixConvert	Convert lower triangular distance matrix into data frame
otu4type	An example OTU table with samples and taxonomy in rows and otus in columns
otuCollap	collapse a OTU table at given level.
otumothur	OTU table generated from 8 lakes over 4 years
otuqiime	OTU table generated from 8 lakes over 4 years
otuReport	Summarize the community structure and abundance with OTU table
pbray	Partition the Bray-Curtis distance dissimilarity
rareBiosphere	Summarize different subgroups in the rare biosphere
slimTax	reshape heirarchical taxonomy
subOTU	Subset a OTU table
typeConvert	Transpose the data frame if there is data type conversion.