Assess the performance of mutational-signature analysis programs using
catalogs of synthetic mutational spectra created by package
SynSigGen
.
This version (0.4.0) and previous version (0.3.1) are suitable for assessing the extraction accuracy in paper mSigHdp: hierarchical Dirichlet processes for mutational signature discovery - Liu et al. (2022).
For assessing extraction accuracy on data sets presented by paper
Accuracy of Mutational Signature Software on Correlated Signatures -
Wu et al. (2022), please proceed to version
0.2.2
.
Check NEWS.md for differences between version 0.4.0 and previous versions.
Before installation, prerequisites in
Bioconductor
needs to be
installed:
install.packages("BiocManager")
BiocManager::install(
c("Biostrings", "BSgenome", "GenomeInfoDb", "GenomicRanges")
)
Install the development version of SynSigEval
from GitHub with the
R command line:
install.packages("remotes")
# Stable version
remotes::install_github("WuyangFF95/SynSigEval", ref = "v0.4.0-branch")
# Develop version
remotes::install_github("WuyangFF95/SynSigEval", ref = "main")
https://github.com/WuyangFF95/SynSigEval/blob/main/data-raw/SynSigEval_0.4.0.pdf