enveomics.R: Various Utilities for Microbial Genomics and Metagenomics

A collection of functions for microbial ecology and other applications of genomics and metagenomics. Companion package for the Enveomics Collection (Rodriguez-R, L.M. and Konstantinidis, K.T., 2016 <DOI:10.7287/peerj.preprints.1900v1>).

Install the latest version of this package by entering the following in R:
install.packages("enveomics.R")
AuthorLuis M. Rodriguez-R [aut, cre]
Date of publication2017-04-04 06:10:25 UTC
MaintainerLuis M. Rodriguez-R <lmrodriguezr@gmail.com>
LicenseArtistic-2.0
Version1.1.5
http://enve-omics.ce.gatech.edu/enveomics

View on CRAN

Man pages

enve.barplot: enve barplot

enve.cliopts: enve cliopts

enve.col2alpha: enve col2alpha

enve.col.alpha: enve col alpha

enve.df2dist: enve df2dist

enve.df2dist.group: enve df2dist group

enve.df2dist.list: enve df2dist list

enve.growthcurve: enve growthcurve

enve.GrowthCurve-class: enve.GrowthCurve S4 class

enveomics.R-package: Various Utilities for Microbial Genomics and Metagenomics

enve.prune.dist: enve prune dist

enve.__prune.iter: enve prune iter

enve.__prune.reduce: enve prune reduce

enve.recplot: enve recplot

enve.recplot2: enve recplot2

enve.recplot2.changeCutoff: enve recplot2 changeCutoff

enve.RecPlot2-class: enve.RecPlot2 S4 class

enve.recplot2.corePeak: enve recplot2 corePeak

enve.recplot2.__counts: enve recplot2 counts

enve.recplot2.extractWindows: enve recplot2 extractWindows

enve.recplot2.__findPeak: enve recplot2 findPeak

enve.recplot2.findPeaks: enve recplot2 findPeaks

enve.recplot2.__findPeaks: enve recplot2 findPeaks

enve.RecPlot2.Peak-class: enve.RecPlot2.Peak S4 class

enve.recplot2.__peakHist: enve recplot2 peakHist

enve.recplot2.__whichClosestPeak: enve recplot2 whichClosestPeak

enve.tribs: enve tribs

enve.__tribs: enve tribs

enve.TRIBS-class: enve.TRIBS S4 class

enve.TRIBS.merge: enve TRIBS merge

enve.tribs.test: enve tribs test

enve.TRIBStest-class: enve.TRIBStest S4 class

growth.curves: Bacterial growth curves for three Escherichia coli mutants

phyla.counts: Counts of microbial phyla in four sites

plot.enve.GrowthCurve: plot enve GrowthCurve

plot.enve.RecPlot2: plot enve RecPlot2

plot.enve.TRIBS: plot enve TRIBS

plot.enve.TRIBStest: plot enve TRIBStest

summary.enve.GrowthCurve: summary enve GrowthCurve

summary.enve.TRIBS: summary enve TRIBS

summary.enve.TRIBStest: summary enve TRIBStest

z$-methods: ~~ Methods for Function '$' ~~

Functions

$ Man page
enve.barplot Man page
enve.cliopts Man page
enve.col2alpha Man page
enve.col.alpha Man page
enve.df2dist Man page
enve.df2dist.group Man page
enve.df2dist.list Man page
enve.growthcurve Man page
enve.GrowthCurve Man page
enve.GrowthCurve-class Man page
$,enve.GrowthCurve-method Man page
enveomics.R Man page
enveomics.R-package Man page
enve.prune.dist Man page
enve.__prune.iter Man page
enve.__prune.reduce Man page
enve.recplot Man page
enve.recplot2 Man page
enve.RecPlot2 Man page
enve.recplot2.changeCutoff Man page
enve.RecPlot2-class Man page
enve.recplot2.corePeak Man page
enve.recplot2.__counts Man page
enve.recplot2.extractWindows Man page
enve.recplot2.__findPeak Man page
enve.recplot2.findPeaks Man page
enve.recplot2.__findPeaks Man page
$,enve.RecPlot2-method Man page
enve.RecPlot2.Peak Man page
enve.RecPlot2.Peak-class Man page
enve.recplot2.__peakHist Man page
$,enve.RecPlot2.Peak-method Man page
enve.recplot2.__whichClosestPeak Man page
enve.tribs Man page
enve.__tribs Man page
enve.TRIBS Man page
enve.TRIBS-class Man page
enve.TRIBS.merge Man page
enve.tribs.test Man page
enve.TRIBStest Man page
enve.TRIBStest-class Man page
growth.curves Man page
$-methods Man page
phyla.counts Man page
plot.enve.GrowthCurve Man page
plot.enve.RecPlot2 Man page
plot.enve.TRIBS Man page
plot.enve.TRIBStest Man page
summary.enve.GrowthCurve Man page
summary.enve.TRIBS Man page
summary.enve.TRIBStest Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.