cpp_cleanse

Replaces values in matrix mat according to mask msk.
Depending of <code>'add_noise'</code> parameter, values of <code>'mat'</code> will be replaced with noise or not.

internal

Contains several tools to treat imaging flow cytometry data from 'ImageStream®' and 'FlowSight®' cytometers ('Amnis®' 'Cytek®'). Provides an easy and simple way to read and write .fcs, .rif, .cif and .daf files. Information such as masks, features, regions and populations set within these files can be retrieved for each single cell. In addition, raw data such as images stored can also be accessed. Users, may hopefully increase their productivity thanks to dedicated functions to extract, visualize, manipulate and export 'IFC' data. Toy data example can be installed through the 'IFCdata' package of approximately 32 MB, which is available in a 'drat' repository <https://gitdemont.github.io/IFCdata/>. See file 'COPYRIGHTS' and file 'AUTHORS' for a list of copyright holders and authors.

Yohann Demont

Tools for Imaging Flow Cytometry

Gautier Stoll

Guido Kroemer

Jean-Pierre Marolleau

Loïc Garçon

cpp_cleanse function

<dl><dt>mat</dt>
<dd>a NumericMatrix.</dd>
<dt>msk</dt>
<dd>a IntegerMatrix.</dd>
<dt>add_noise</dt>
<dd>bool, whether to add normal noise or not, <code>Rcpp::Rf_rnorm(bg, sd)</code> function is used. Default is <code>true</code>.</dd>
<dt>bg</dt>
<dd>double, mean value of the background added if <code>'add_noise'</code> is <code>true</code>. Default is <code>0.0</code>.</dd>
<dt>sd</dt>
<dd>double, standard deviation of the background added if <code>'add_noise'</code> is <code>true</code>. Default is <code>0.0</code>.</dd></dl>

Arguments

Matrix Cleanser — cpp_cleanse

<dl>

<dt>mat</dt>
<dd>a NumericMatrix.</dd>


<dt>msk</dt>
<dd>a IntegerMatrix.</dd>


<dt>add_noise</dt>
<dd>bool, whether to add normal noise or not, <code>Rcpp::Rf_rnorm(bg, sd)</code> function is used. Default is <code>true</code>.</dd>


<dt>bg</dt>
<dd>double, mean value of the background added if <code>'add_noise'</code> is <code>true</code>. Default is <code>0.0</code>.</dd>


<dt>sd</dt>
<dd>double, standard deviation of the background added if <code>'add_noise'</code> is <code>true</code>. Default is <code>0.0</code>.</dd>

</dl>

cpp_cleanse: Matrix Cleanser

Description

Value

Arguments