sigminer

sigminer-package

<ul>
<li>Author: <a href="https://shixiangwang.github.io/home/">Shixiang Wang</a> (<a href="/link/w_shixiang%40163.com?package=sigminer&version=2.3.3" data-mini-rdoc="sigminer::w_shixiang@163.com">w_shixiang@163.com</a>)</li>
<li>Please go to <a href="https://shixiangwang.github.io/sigminer-doc/">https://shixiangwang.github.io/sigminer-doc/</a> for full vignette.</li>
<li>Please go to <a href="https://shixiangwang.github.io/sigminer/reference/index.html">https://shixiangwang.github.io/sigminer/reference/index.html</a>
for organized documentation of functions and datasets.</li>
<li>Result visualization for MAF is provide by maftools package,
please read its <a href="https://bioconductor.org/packages/release/bioc/vignettes/maftools/inst/doc/maftools.html">vignette</a>.</li>
</ul>

internal

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

Extract, Analyze and Visualize Mutational Signatures for Genomic
Variations

Ziyu Tao

Huimin Li

Tao Wu

Xue-Song Liu

Anand Mayakonda

sigminer-package function

Maintainer: Shixiang Wang <a href="/link/w_shixiang%40163.com?package=sigminer&version=2.3.3" data-mini-rdoc="sigminer::w_shixiang@163.com">w_shixiang@163.com</a> (<a href="https://orcid.org/0000-0001-9855-7357">ORCID</a>)
Authors:<ul>
<li>Ziyu Tao <a href="/link/taozy%40shanghaitech.edu.cn?package=sigminer&version=2.3.3" data-mini-rdoc="sigminer::taozy@shanghaitech.edu.cn">taozy@shanghaitech.edu.cn</a> (<a href="https://orcid.org/0000-0003-3272-1227">ORCID</a>)</li>
<li>Huimin Li <a href="/link/lihm%40shanghaitech.edu.cn?package=sigminer&version=2.3.3" data-mini-rdoc="sigminer::lihm@shanghaitech.edu.cn">lihm@shanghaitech.edu.cn</a> (<a href="https://orcid.org/0000-0003-1683-9057">ORCID</a>)</li>
<li>Tao Wu <a href="/link/wutao2%40shanghaitech.edu.cn?package=sigminer&version=2.3.3" data-mini-rdoc="sigminer::wutao2@shanghaitech.edu.cn">wutao2@shanghaitech.edu.cn</a> (<a href="https://orcid.org/0000-0002-8999-9628">ORCID</a>)</li>
<li>Xue-Song Liu (<a href="https://orcid.org/0000-0002-7736-0077">ORCID</a>) [contributor]</li>
</ul>Other contributors:<ul>
<li>Anand Mayakonda [contributor]</li>
</ul>

Author

<ul>
<li>Author: <a href='https://shixiangwang.github.io/home/'>Shixiang Wang</a> (<a href='mailto:w_shixiang@163.com'>w_shixiang@163.com</a>)</li>
<li>Please go to <a href='https://shixiangwang.github.io/sigminer-doc/'>https://shixiangwang.github.io/sigminer-doc/</a> for full vignette.</li>
<li>Please go to <a href='https://shixiangwang.github.io/sigminer/reference/index.html'>https://shixiangwang.github.io/sigminer/reference/index.html</a>
for organized documentation of functions and datasets.</li>
<li>Result visualization for MAF is provide by maftools package,
please read its <a href='https://bioconductor.org/packages/release/bioc/vignettes/maftools/inst/doc/maftools.html'>vignette</a>.</li>
</ul>

sigminer: Extract, Analyze and Visualize Signatures for Genomic Variations — sigminer-package

Maintainer: Shixiang Wang <a href='mailto:w_shixiang@163.com'>w_shixiang@163.com</a> (<a href='https://orcid.org/0000-0001-9855-7357'>ORCID</a>)
Authors:<ul>
<li>Ziyu Tao <a href='mailto:taozy@shanghaitech.edu.cn'>taozy@shanghaitech.edu.cn</a> (<a href='https://orcid.org/0000-0003-3272-1227'>ORCID</a>)</li>
<li>Huimin Li <a href='mailto:lihm@shanghaitech.edu.cn'>lihm@shanghaitech.edu.cn</a> (<a href='https://orcid.org/0000-0003-1683-9057'>ORCID</a>)</li>
<li>Tao Wu <a href='mailto:wutao2@shanghaitech.edu.cn'>wutao2@shanghaitech.edu.cn</a> (<a href='https://orcid.org/0000-0002-8999-9628'>ORCID</a>)</li>
<li>Xue-Song Liu (<a href='https://orcid.org/0000-0002-7736-0077'>ORCID</a>) [contributor]</li>
</ul>

Other contributors:<ul>
<li>Anand Mayakonda [contributor]</li>
</ul>

sigminer-package: sigminer: Extract, Analyze and Visualize Signatures for Genomic Variations

Description

Arguments

Author

See Also