dot-calculateDInd: Calculates the "standard" diversity indices

In malhamdoosh/abseqR: Reporting and data analysis functionalities for Rep-Seq datasets of antibody libraries

Description

Calculates the "standard" diversity indices

Usage

.calculateDInd(df)

Arguments

df	clonotype dataframe. Vegan format: +—————————+ | S.1| S.2| S.3 | S.4 | ... | (each species should have its own column) +—————————+ | v1 |v2 | v3 | .... | (each species' count values are placed in the corresponding column) +—————————+

Value

dataframe with the column headers: shannon , simpson.con , simpson.inv , simpson.gini , renyi.0 , renyi.1 , renyi.2 , renyi.Inf , hill.0 , hill.1 , hill.2 , hill.Inf

renyi.0 => species richness renyi.1 => shannon entropy renyi.2 => inv.gini renyi.Inf => min.entropy

finally: hill_a = exp(renyi_a)

malhamdoosh/abseqR documentation built on May 24, 2019, 12:36 a.m.