reb: Regional Expression Biases

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A set of functions to dentify regional expression biases

Author
Kyle A. Furge <kyle.furge@vai.org> and Karl Dykema <karl.dykema@vai.org>
Date of publication
None
Maintainer
Karl J. Dykema <karl.dykema@vai.org>
License
GPL-2
Version
1.52.0

View on Bioconductor

Man pages

absMax
Absolute Maxima
buildChromCytoband
Construct a chromLocation object from a cytoband environment
buildChromMap
A function to generate an instantiation of a chromLocation...
cset2band
cset2band
fromRevIsh
Convert from revish strings to a matrix
Hs.arms
Hs.arms
isAbnormal
Is a band 'abnormal'?
mcr.eset
Example exprSet and chromLocation objects
movbin
movbin
movt
movt
naMean
Wrapper function for the arithmetic mean
regmap
image function wrapper
revish
Creation of CGH (reverse in situ hybridization) style...
rmAmbigMappings
Remove genes that map to multiple chromosomes from a...
smoothByRegion
reb
summarizeByRegion
Compute Summary Statistics of Genome Regions
tBinomTest
binomial t-test
writeGFF3
Output of a GFF compliant table describing the enhanced and...

Files in this package

reb/DESCRIPTION
reb/NAMESPACE
reb/R
reb/R/reb.R
reb/build
reb/build/vignette.rds
reb/data
reb/data/Hs.arms.rda
reb/data/mcr.eset.rda
reb/inst
reb/inst/doc
reb/inst/doc/reb.R
reb/inst/doc/reb.Rnw
reb/inst/doc/reb.pdf
reb/man
reb/man/Hs.arms.Rd
reb/man/absMax.Rd
reb/man/buildChromCytoband.Rd
reb/man/buildChromMap.Rd
reb/man/cset2band.Rd
reb/man/fromRevIsh.Rd
reb/man/isAbnormal.Rd
reb/man/mcr.eset.Rd
reb/man/movbin.Rd
reb/man/movt.Rd
reb/man/naMean.Rd
reb/man/regmap.Rd
reb/man/revish.Rd
reb/man/rmAmbigMappings.Rd
reb/man/smoothByRegion.Rd
reb/man/summarizeByRegion.Rd
reb/man/tBinomTest.Rd
reb/man/writeGFF3.Rd
reb/src
reb/src/movbin.c
reb/vignettes
reb/vignettes/reb.Rnw