CatalogRowOrder

catalog.row.order

<p>This data is designed for those
who need to create their own catalogs from formats not
supported by this package. The rownames denote the mutation
types.  For example, for SBS96 catalogs, the rowname
 AGAT represents a mutation from AGA &gt; ATA.</p>

datasets

Analysis and visualization of experimentally elucidated mutational
signatures -- the kind of analysis and visualization in Boot et al.,
"In-depth characterization of the cisplatin mutational signature in
human cell lines and in esophageal and liver tumors", Genome Research 2018,
<doi:10.1101/gr.230219.117>. 'ICAMS' stands for In-depth Characterization
and Analysis of Mutational Signatures. 'ICAMS' has functions to read in
variant call files (VCFs) and to collate the corresponding catalogs of
mutational spectra and to analyze and plot catalogs of mutational spectra
and signatures. Handles both "counts-based" and "density-based" catalogs
of mutational spectra or signatures.

Steve Rozen

ICAMS

In-depth Characterization and Analysis of Mutational Signatures
('ICAMS')

CatalogRowOrder function

<p>A list of character vectors indicating the standard
  orders of row names in catalogs.</p>

CatalogRowOrder: Standard order of row names in a catalog.

Description

Usage

Arguments

Format

Examples