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Overview

grase is a package that estimates the sequencing effort required to achieve a goal of MAG construction. This is based on a model presented in Royalty and Steen (2018).

Note that this method simply estimates coverage of genomes in a mixed community; it doesn't take into account efficiency of assembly or accuracy of binning algorithms. It therefore places a lower bound on the sequencing effort that is required to avhieve a given coverage.

Running grase

grase can be run over the web or locally. Running over the web is the easiest: navigate to adsteen.shinyapps.io/grase. Alternately, you can run on your own computer using the following script:

library(shiny)
runGitHub(runGitHub("adsteen/grase")

grase relies on the following packages, which must be installed for it to run locally: mgcv, shiny, shinyWidgets, dplyr, ggplot2, scales.

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Genome Relative Abundance to Sequencing Effort: a tool for planning MAG sequencing experiments

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