pcawg_counts.Rd 9.05 KB
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% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/pcwag_counts-data.R
\docType{data}
\name{pcawg_counts}
\alias{pcawg_counts}
\title{Mutation counts attributed to each mutational signature in each tumour.}
\format{
A data frame with 2780 rows and 68 variables
\describe{
\item{Cancer.Types}{37 different cancer types}
\item{Sample.Names}{Unique tumour identifiers}
\item{Accuracy}{Cosine similarity between the tumour's mutational profile and the reconstructed mutational profile}
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\item{SBS1}{Single-base-substitution signature 1. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS1.tt}}
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\item{SBS10a}{Single-base-substitution signature 10a. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS10a.tt}}
\item{SBS10b}{Single-base-substitution signature 10b. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS10b.tt}}
\item{SBS11}{Single-base-substitution signature 11. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS11.tt}}
\item{SBS12}{Single-base-substitution signature 12. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS12.tt}}
\item{SBS13}{Single-base-substitution signature 13. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS13.tt}}
\item{SBS14}{Single-base-substitution signature 14. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS14.tt}}
\item{SBS15}{Single-base-substitution signature 15. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS15.tt}}
\item{SBS16}{Single-base-substitution signature 16. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS16.tt}}
\item{SBS17a}{Single-base-substitution signature 17a. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS17a.tt}}
\item{SBS17b}{Single-base-substitution signature 17b. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS17b.tt}}
\item{SBS18}{Single-base-substitution signature 18. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS18.tt}}
\item{SBS19}{Single-base-substitution signature 19. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS19.tt}}
\item{SBS20}{Single-base-substitution signature 20. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS20.tt}}
\item{SBS2}{Single-base-substitution signature 2. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS2.tt}}
\item{SBS21}{Single-base-substitution signature 21. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS21.tt}}
\item{SBS22}{Single-base-substitution signature 22. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS22.tt}}
\item{SBS23}{Single-base-substitution signature 23. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS23.tt}}
\item{SBS24}{Single-base-substitution signature 24. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS24.tt}}
\item{SBS25}{Single-base-substitution signature 25. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS25.tt}}
\item{SBS26}{Single-base-substitution signature 26. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS26.tt}}
\item{SBS27}{Single-base-substitution signature 27. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS27.tt}}
\item{SBS28}{Single-base-substitution signature 28. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS28.tt}}
\item{SBS29}{Single-base-substitution signature 29. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS29.tt}}
\item{SBS30}{Single-base-substitution signature 30. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS30.tt}}
\item{SBS3}{Single-base-substitution signature 3. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS3.tt}}
\item{SBS31}{Single-base-substitution signature 31. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS31.tt}}
\item{SBS32}{Single-base-substitution signature 32. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS32.tt}}
\item{SBS33}{Single-base-substitution signature 33. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS33.tt}}
\item{SBS34}{Single-base-substitution signature 34. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS34.tt}}
\item{SBS35}{Single-base-substitution signature 35. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS35.tt}}
\item{SBS36}{Single-base-substitution signature 36. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS36.tt}}
\item{SBS37}{Single-base-substitution signature 37. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS37.tt}}
\item{SBS38}{Single-base-substitution signature 38. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS38.tt}}
\item{SBS39}{Single-base-substitution signature 39. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS39.tt}}
\item{SBS40}{Single-base-substitution signature 40. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS40.tt}}
\item{SBS4}{Single-base-substitution signature 4. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS4.tt}}
\item{SBS41}{Single-base-substitution signature 41. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS41.tt}}
\item{SBS42}{Single-base-substitution signature 42. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS42.tt}}
\item{SBS43}{Single-base-substitution signature 43. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS43.tt}}
\item{SBS44}{Single-base-substitution signature 44. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS44.tt}}
\item{SBS45}{Single-base-substitution signature 45. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS45.tt}}
\item{SBS46}{Single-base-substitution signature 46. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS46.tt}}
\item{SBS47}{Single-base-substitution signature 47. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS47.tt}}
\item{SBS48}{Single-base-substitution signature 48. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS48.tt}}
\item{SBS49}{Single-base-substitution signature 49. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS49.tt}}
\item{SBS5}{Single-base-substitution signature 5. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS5.tt}}
\item{SBS50}{Single-base-substitution signature 50. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS50.tt}}
\item{SBS51}{Single-base-substitution signature 51. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS51.tt}}
\item{SBS52}{Single-base-substitution signature 52. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS52.tt}}
\item{SBS53}{Single-base-substitution signature 53. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS53.tt}}
\item{SBS54}{Single-base-substitution signature 54. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS54.tt}}
\item{SBS55}{Single-base-substitution signature 55. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS55.tt}}
\item{SBS56}{Single-base-substitution signature 56. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS56.tt}}
\item{SBS57}{Single-base-substitution signature 57. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS57.tt}}
\item{SBS58}{Single-base-substitution signature 58. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS58.tt}}
\item{SBS59}{Single-base-substitution signature 59. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS59.tt}}
\item{SBS6}{Single-base-substitution signature 6. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS6.tt}}
\item{SBS60}{Single-base-substitution signature 60. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS60.tt}}
\item{SBS7a}{Single-base-substitution signature 7a. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS7a.tt}}
\item{SBS7b}{Single-base-substitution signature 7b. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS7b.tt}}
\item{SBS7c}{Single-base-substitution signature 7c. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS7c.tt}}
\item{SBS7d}{Single-base-substitution signature 7d. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS7d.tt}}
\item{SBS8}{Single-base-substitution signature 8. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS8.tt}}
\item{SBS9}{Single-base-substitution signature 9. See \url{https://cancer.sanger.ac.uk/cosmic/signatures/SBS/SBS9.tt}}
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}
}
\source{
Synapse collaborative compute space, \url{https://www.synapse.org/#!Synapse:syn11804065}
}
\usage{
data(pcawg_counts)
}
\description{
Data from the mutational signature analysis of Alexandrov et al. on the PCAWG data.
The data is available as supplementary data to the paper "The repertoire of mutational signatures in human cancer"
on the Synapse data repository syn11738669
}
\details{
\code{pcawg_counts} contains the mutation counts as attributed by the SigProfiler algorithm on the
Single-Base-Substitution (SBSs) mutation catalogs of 2780 WGS tumours from the PCAWG.
}
\examples{
data(pcawg_counts)
}
\references{
Alexandrov, L.B., Kim, J., Haradhvala, N.J. et al. The repertoire of mutational signatures in human cancer.
Nature 578, 94–101 (2020). \url{https://doi.org/10.1038/s41586-020-1943-3}
}
\keyword{datasets}