get_sig_rec_similarity

Signature

a <code>matrix</code> used for NMF decomposition with rows indicate samples and columns indicate components.

nmf_matrix

See <a rd-options="" href="/link/bp_extract_signatures?package=sigminer&version=1.2.5" data-mini-rdoc="sigminer::bp_extract_signatures">bp_extract_signatures</a> for examples.

Genomic alterations including single nucleotide
substitution, copy number alteration, etc. are the major force for
cancer initialization and development. Due to the specificity of
molecular lesions caused by genomic alterations, we can generate
characteristic alteration spectra, called 'signature' (Wang, Shixiang,
et al. (2020) <DOI:10.1101/2020.04.27.20082404> & Alexandrov, Ludmil
B., et al. (2020) <DOI:10.1038/s41586-020-1943-3> & Macintyre, Geoff,
et al. (2018) <DOI:10.1038/s41588-018-0179-8>). This package helps
users to extract, analyze and visualize signatures from genomic
alteration records, thus providing new insight into cancer study.

Shixiang Wang

sigminer

Extract, Analyze and Visualize Mutational Signatures for Genomic
Variations

Ziyu Tao

Huimin Li

Tao Wu

Xue-Song Liu

Geoffrey Macintyre

Anand Mayakonda

get_sig_rec_similarity function

See <a rd-options='' href='bp_extract_signatures'>bp_extract_signatures</a> for examples.

get_sig_rec_similarity: Get Reconstructed Profile Cosine Similarity

Description

Usage

Arguments

Value