ebimetagenomics (version 0.6)

EBI Metagenomics Portal

Description

Functions for querying the EBI Metagenomics Portal . The current main focus is on taxa abundance data, but the intention is that this package should evolve into a general purpose package for working with EBI Metagenomics data using R.

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Version

Install

install.packages('ebimetagenomics')

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Version

0.6

License

LGPL-3

Maintainer

Darren Wilkinson

Last Published

October 28th, 2018

Functions in ebimetagenomics (0.6)

getProjectSummary

Download an EMG project summary into a data frame

analyseOtu

Analysis of OTU count data

convertOtuTad

Converts an OTU count data frame to a TAD data frame

runsBySample

Find runs associated with a particular sample ID within an EMG project

getProjectsList

Download the EMG projects list into a data frame

mergeOtu

Merges two OTU count data data frames to produce a combined OTU count data data frame

read.otu.tsv

Reads OTU count data associated with a EMG run

plotOtu

Plots OTU count data

read.project.csv

Read an EMG project summary into a data frame

projectRuns

Find runs associated with an EMG project

projectSamples

Find samples associated with an EMG project

getRunOtu

Downloads OTU count data associated with a EMG run

getSampleOtu

Downloads and merges all of the OTU count data associated with a EMG sample