ecolitk: Meta-data and tools for E. coli
Version 1.48.0

Meta-data and tools to work with E. coli. The tools are mostly plotting functions to work with circular genomes. They can used with other genomes/plasmids.

Browse man pages Browse package API and functions Browse package files

AuthorLaurent Gautier
Bioconductor views Annotation Visualization
Date of publicationNone
MaintainerLaurent Gautier <lgautier@gmail.com>
LicenseGPL (>= 2)
Version1.48.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("ecolitk")

Man pages

ecoli.data: Escherichia coli data
ecoligenomeBNUM: Environment for 'bnum' identifiers
ecoligenomeBNUM2MULTIFUN: Environment
ecoligenome.operon: Known operon in E.coli - data.frame
gccontent: function to compute gccontent
linkedmultiget: A function to look for values across linked environments
multiFun: multiFun classification
pointsCircle: Functions to plot circular related figures
polar2xy: Functions to perform polar coordinate related functions
polygonChrom: Functions to plot circular chromosomes informations
wstringapply: Apply a function on a window sliding on a string

Functions

arrowsArc Man page Source code
buildBNUM2GENBANK Source code
buildBNUM2GENEPRODUCT Source code
buildBNUM2MULTIFUN Source code
buildBNUM2SYMBOL Source code
buildGENEPRODFUN Source code
buildMULTIFUN2GO Source code
buildMultiFun Source code
buildMultiFunGraphNEL Source code
cPlotCircle Man page Source code
chromPos2angle Man page Source code
ecoli.len Man page
ecoli.m52.genome Man page
ecoli.operon Man page
ecoligenome.operon Man page
ecoligenomeBNUM Man page
ecoligenomeBNUM2ENZYME Man page
ecoligenomeBNUM2GENBANK Man page
ecoligenomeBNUM2GENEPRODUCT Man page
ecoligenomeBNUM2MULTIFUN Man page
ecoligenomeBNUM2STRAND Man page
ecoligenomeBNUM2SYMBOL Man page
ecoligenomeCHRLOC Man page
ecoligenomeMULTIFUN2GO Man page
ecoligenomeSTRAND Man page
ecoligenomeSYMBOL Man page
ecoligenomeSYMBOL2AFFY Man page
ecoligenomeSYMBOL2BNUM Man page
gccontent Man page Source code
linesArc Man page Source code
linesChrom Man page Source code
linesCircle Man page Source code
linkedmultiget Man page Source code
multiFun Man page
pointsArc Man page Source code
polar2xy Man page Source code
polygonArc Man page Source code
polygonChrom Man page Source code
polygonDisk Man page Source code
rotate Man page Source code
wstringapply Man page Source code
xy2polar Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/internalFuncs.R
R/polygonCircle.R
R/rotate.R
R/wapply.R
build
build/vignette.rds
data
data/datalist
data/ecoli.genome.rda
data/ecoli.m52.genome.rda
data/ecoligenome.operon.rda
data/ecoligenomeBNUM.rda
data/ecoligenomeBNUM2ENZYME.rda
data/ecoligenomeBNUM2GENBANK.rda
data/ecoligenomeBNUM2GENEPRODUCT.rda
data/ecoligenomeBNUM2MULTIFUN.rda
data/ecoligenomeBNUM2STRAND.rda
data/ecoligenomeBNUM2SYMBOL.rda
data/ecoligenomeCHRLOC.rda
data/ecoligenomeMULTIFUN2GO.rda
data/ecoligenomeSTRAND.rda
data/ecoligenomeSYMBOL.rda
data/ecoligenomeSYMBOL2AFFY.rda
data/ecoligenomeSYMBOL2BNUM.rda
data/multiFun.rda
inst
inst/doc
inst/doc/ecolitk.R
inst/doc/ecolitk.Rnw
inst/doc/ecolitk.pdf
man
man/ecoli.data.Rd
man/ecoligenome.operon.Rd
man/ecoligenomeBNUM.Rd
man/ecoligenomeBNUM2MULTIFUN.Rd
man/gccontent.Rd
man/linkedmultiget.Rd
man/multiFun.Rd
man/pointsCircle.Rd
man/polar2xy.Rd
man/polygonChrom.Rd
man/wstringapply.Rd
vignettes
vignettes/00Index.dcf
vignettes/ecolitk.Rnw
ecolitk documentation built on May 20, 2017, 9:25 p.m.