deconstructSigs: Identifies Signatures Present in a Tumor Sample

Takes sample information in the form of the fraction of mutations in each of 96 trinucleotide contexts and identifies the weighted combination of published signatures that, when summed, most closely reconstructs the mutational profile.

AuthorRachel Rosenthal
Date of publication2016-07-29 18:27:06
MaintainerRachel Rosenthal <rachel.rosenthal.14@ucl.ac.uk>
LicenseGPL (>= 2)
Version1.8.0
https://github.com/raerose01/deconstructSigs

View on CRAN

Files in this package

deconstructSigs
deconstructSigs/inst
deconstructSigs/inst/extdata
deconstructSigs/inst/extdata/plotSignatures.png
deconstructSigs/inst/extdata/makePie.png
deconstructSigs/NAMESPACE
deconstructSigs/NEWS
deconstructSigs/data
deconstructSigs/data/example.output.rda
deconstructSigs/data/tri.counts.genome.rda
deconstructSigs/data/tri.counts.exome.rda
deconstructSigs/data/signatures.nature2013.rda
deconstructSigs/data/sample.mut.ref.rda
deconstructSigs/data/signatures.cosmic.rda
deconstructSigs/data/randomly.generated.tumors.rda
deconstructSigs/R
deconstructSigs/R/globalVariables.R deconstructSigs/R/plotting.R deconstructSigs/R/mut.to.sigs.input.R deconstructSigs/R/vcf.to.sigs.input.R deconstructSigs/R/deconstructSigs.R deconstructSigs/R/normalize.data.R deconstructSigs/R/golden_section_search.R deconstructSigs/R/datasets.R deconstructSigs/R/internal.scripts.R deconstructSigs/R/whichSignatures.R
deconstructSigs/README.md
deconstructSigs/MD5
deconstructSigs/DESCRIPTION
deconstructSigs/man
deconstructSigs/man/golden.section.search.Rd deconstructSigs/man/signatures.nature2013.Rd deconstructSigs/man/randomly.generated.tumors.Rd deconstructSigs/man/sample.mut.ref.Rd deconstructSigs/man/plotTumor.Rd deconstructSigs/man/makePie.Rd deconstructSigs/man/getTriContextFraction.Rd deconstructSigs/man/vcf.to.sigs.input.Rd deconstructSigs/man/mut.to.sigs.input.Rd deconstructSigs/man/changeColumnNames.Rd deconstructSigs/man/norm.it.Rd deconstructSigs/man/updateW_GR.Rd deconstructSigs/man/tri.counts.exome.Rd deconstructSigs/man/whichSignatures.Rd deconstructSigs/man/plotSignatures.Rd deconstructSigs/man/getError.Rd deconstructSigs/man/deconstructSigs.Rd deconstructSigs/man/example.output.Rd deconstructSigs/man/findSeed.Rd deconstructSigs/man/tri.counts.genome.Rd deconstructSigs/man/formatContexts.Rd deconstructSigs/man/signatures.cosmic.Rd

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

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