read_copynumber_seqz

Read Absolute Copy Number Profile from Sequenza Result Directory

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

read_copynumber_seqz function

<dl><dt>target_dir</dt>
<dd>a directory path.</dd>
<dt>return_df</dt>
<dd>if <code>TRUE</code>, return a <code>data.frame</code> directly, otherwise return a
CopyNumber object.</dd>
<dt>...</dt>
<dd>other parameters passing to <code>read_copynumber()</code>.</dd></dl>

Arguments

Read Absolute Copy Number Profile from Sequenza Result Directory — read_copynumber_seqz

<dl>

<dt>target_dir</dt>
<dd>a directory path.</dd>


<dt>return_df</dt>
<dd>if <code>TRUE</code>, return a <code>data.frame</code> directly, otherwise return a
CopyNumber object.</dd>


<dt>...</dt>
<dd>other parameters passing to <code>read_copynumber()</code>.</dd>

</dl>

read_copynumber_seqz: Read Absolute Copy Number Profile from Sequenza Result Directory

Description

Usage

Value

Arguments