salter: Reagent and laboratory contamination data

In katiasmirn/PERFect: Permutation filtration for microbiome data

Description

The data (Salter et al., 2014) was generated from the study of the effect of present contaminants in DNA extraction kits and other laboratory reagents on sequencing DNA. Mock samples of a pure Salmonella bongori culture had undergone five rounds of serial ten-fold dilutions to generate a series of high to low biomass samples. To generate a taxa counts table from this study, we used samples for the Salmonella bongori culture 16S rRNA gene profiling data, which are deposited as FASTQ files under ENA project accession EMBL: ERP006737 (https://www.ebi.ac.uk/ena/data/view/PRJEB7055), and processed using the dada2 R-package.

Usage

data(salter)

Format

This file contains the OTU table, its metadata and taxomomy. The OTU table has 42 samples and 625 taxa.

katiasmirn/PERFect documentation built on Sept. 17, 2019, 11:54 a.m.