popsRetrieveGraph

Retrieves the graph a graphical population originate from

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

popsRetrieveGraph function

<dl><dt>obj</dt>
<dd>an `IFC_data` object extracted by ExtractFromDAF(extract_features = TRUE) or ExtractFromXIF(extract_features = TRUE).</dd>
<dt>pops</dt>
<dd>names of graphical populations present in 'obj'. Note that they should be siblings.</dd>
<dt>vis2D</dt>
<dd>when original graph is not an histogram, whether to display it as "scatter" or "density". Default is "density".</dd>
<dt>all_siblings</dt>
<dd>whether to add all 'pop' siblings in the graph. Default is FALSE.</dd></dl>

Arguments

Graph Retrieval from Graphical IFC_pops — popsRetrieveGraph

<dl>

<dt>obj</dt>
<dd>an `IFC_data` object extracted by ExtractFromDAF(extract_features = TRUE) or ExtractFromXIF(extract_features = TRUE).</dd>


<dt>pops</dt>
<dd>names of graphical populations present in 'obj'. Note that they should be siblings.</dd>


<dt>vis2D</dt>
<dd>when original graph is not an histogram, whether to display it as "scatter" or "density". Default is "density".</dd>


<dt>all_siblings</dt>
<dd>whether to add all 'pop' siblings in the graph. Default is FALSE.</dd>

</dl>

popsRetrieveGraph: Graph Retrieval from Graphical IFC_pops

Description

Usage

Value

Arguments