output_tally

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. (2021)
<DOI:10.1371/journal.pgen.1009557> & Alexandrov, Ludmil B., et al.
(2020) <DOI:10.1038/s41586-020-1943-3> & Steele Christopher D., et al.
(2022) <DOI:10.1038/s41586-022-04738-6>). 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

Anand Mayakonda

output_tally function

<dl><dt>x</dt>
<dd>a matrix with row representing components (motifs) and column
representing samples.</dd>
<dt>result_dir</dt>
<dd>a result directory.</dd>
<dt>mut_type</dt>
<dd>one of 'SBS', 'DBS', 'ID' or 'CN'.</dd></dl>

Arguments

Output Tally Result in Barplots — output_tally

<dl>

<dt>x</dt>
<dd>a matrix with row representing components (motifs) and column
representing samples.</dd>


<dt>result_dir</dt>
<dd>a result directory.</dd>


<dt>mut_type</dt>
<dd>one of 'SBS', 'DBS', 'ID' or 'CN'.</dd>

</dl>

Output Tally Result in Barplots

output_tally: Output Tally Result in Barplots

Description

Usage

Value

Arguments