enveomics.R: Various Utilities for Microbial Genomics and Metagenomics
Version 1.1.5

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 ).

Browse man pages Browse package API and functions Browse package files

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
URL http://enve-omics.ce.gatech.edu/enveomics
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("enveomics.R")

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

Files

NAMESPACE
data
data/phyla.counts.rda
data/growth.curves.rda
R
R/tribs.R
R/utils.R
R/autoprune.R
R/cliopts.R
R/df2dist.R
R/recplot.R
R/barplot.R
R/growthcurve.R
R/recplot2.R
README.md
MD5
DESCRIPTION
man
man/plot.enve.TRIBStest.Rd
man/growth.curves.Rd
man/enve.recplot2.__findPeaks.Rd
man/enve.__prune.reduce.Rd
man/plot.enve.RecPlot2.Rd
man/enve.recplot2.findPeaks.Rd
man/z$-methods.Rd
man/enve.RecPlot2.Peak-class.Rd
man/enve.__prune.iter.Rd
man/enve.RecPlot2-class.Rd
man/enve.__tribs.Rd
man/enve.recplot2.__whichClosestPeak.Rd
man/enve.recplot2.Rd
man/enve.df2dist.Rd
man/plot.enve.TRIBS.Rd
man/enveomics.R-package.Rd
man/enve.recplot2.__findPeak.Rd
man/summary.enve.TRIBS.Rd
man/enve.TRIBStest-class.Rd
man/enve.recplot2.extractWindows.Rd
man/enve.recplot2.corePeak.Rd
man/enve.recplot2.__counts.Rd
man/enve.df2dist.list.Rd
man/summary.enve.GrowthCurve.Rd
man/enve.df2dist.group.Rd
man/enve.TRIBS.merge.Rd
man/enve.prune.dist.Rd
man/enve.growthcurve.Rd
man/summary.enve.TRIBStest.Rd
man/enve.col2alpha.Rd
man/enve.recplot.Rd
man/enve.col.alpha.Rd
man/enve.barplot.Rd
man/enve.recplot2.__peakHist.Rd
man/enve.cliopts.Rd
man/phyla.counts.Rd
man/plot.enve.GrowthCurve.Rd
man/enve.recplot2.changeCutoff.Rd
man/enve.TRIBS-class.Rd
man/enve.tribs.test.Rd
man/enve.tribs.Rd
man/enve.GrowthCurve-class.Rd
enveomics.R documentation built on May 20, 2017, 2:59 a.m.