background.info: Specifications of background signatures
In steverozen/mSigBG: Separate Background Mutational Signature from Signature Due to a Mutagen
background.info R Documentation
Specifications of background signatures
Description
Specifications of background signatures
Usage
background.info
Format
A list with one element for each cell line.
Each element of the list
is in turn a list with the elements
background.sigThe background signatures as a
single-column ICAMS catalog.
sig.nbinom.sizeThe negative binomial size dispersion parameter for the
background signature profile. See NegBinomial.
count.nbinom.muThe mean of the numbers of mutations in input.spectra.
count.nbinom.sizeThe negative binomial size dispersion parameter for the
numbers of mutations caused by the background signature (i.e. count.nbinom.mu).
See NegBinomial.
input.spectraThe bg.spectra used to estimate the background.
Source
background.info
was estimated from HepG2.background.spectra and
MCF10A.background.spectra.
Examples
background.info[["HepG2"]]$count.nbinom.mu
background.info[["HepG2"]]$count.nbinom.size
background.info[["HepG2"]]$sig.nbinom.size
background.info[["HepG2"]]$background.sig[1:3, ]
steverozen/mSigBG documentation built on Nov. 4, 2022, 10:58 a.m.
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| background.info | R Documentation |
Specifications of background signatures
Description
Specifications of background signatures
Usage
background.info
Format
A list with one element for each cell line. Each element of the list is in turn a list with the elements
background.sigThe background signatures as a single-column
ICAMScatalog.sig.nbinom.sizeThe negative binomial
sizedispersion parameter for the background signature profile. SeeNegBinomial.count.nbinom.muThe mean of the numbers of mutations in
input.spectra.count.nbinom.sizeThe negative binomial
sizedispersion parameter for the numbers of mutations caused by the background signature (i.e.count.nbinom.mu). SeeNegBinomial.input.spectraThe
bg.spectraused to estimate the background.
Source
background.info
was estimated from HepG2.background.spectra and
MCF10A.background.spectra.
Examples
background.info[["HepG2"]]$count.nbinom.mu background.info[["HepG2"]]$count.nbinom.size background.info[["HepG2"]]$sig.nbinom.size background.info[["HepG2"]]$background.sig[1:3, ]
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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