gut_nrads: Result of normalization of gut_otu_table with 'max_rank =...

In RADanalysis: Normalization and Study of Rank Abundance Distributions

Description

Normalized rads created from gut_otu_table with max_rank = 400 and average_over = 2000. gut_otu_table has 18 gut samples from 3 individuals, prior, under and after using Ciprofloxacin (Cp) antibiotic. Each row is the abundance of gut microbiome for one sample. The row names are as follows:

Usage

data(gut_nrads)

Format

Contain the result of RADnormalization_matrix(input = gut_otu_table,max_rank = 400,average_over = 2000)

Details

• A1, B1 and C1 are samples from individuals A, B and C 60 days prior using Cp.

• A2a is the sample from individual A 6 days prior using Cp.

• A2b is the sample from individual A 2 days prior using Cp.

• A2c, B2 and C2 are samples from individuals A, B and C one day prior using Cp.

• A3a is the sample from individual A 3 days after the first day of Cp administration.

• A3b, B3 and C3 are the samples from individual A, B and C 5 days after the first day of Cp administration.

• A4, B4 and C4 are the samples from individual A, B and C 33 days after the first day of Cp administration.

• A5, B5 and C5 are the samples from individual A, B and C 180 days after the first day of Cp administration.

points 1 and 2 are considered pre-Cp, points 3 are considered under-Cp and point 4 and 5 are considered post-Cp.

order of rows are similar to gut_otu_table

RADanalysis documentation built on May 2, 2019, 6:13 a.m.