loadDeconvData

loadDeconvData,DigitalDLSorter,character-method

loadDeconvData,DigitalDLSorter,SummarizedExperiment-method

Load data to be deconvoluted. Data can be provided from a file path of a
tabulated text file (tsv and tsv.gz formats are accepted) or a
<code>SummarizedExperiment</code> object.

Deconvolution of bulk RNA-Seq data using context-specific deconvolution models based on Deep Neural Networks using scRNA-Seq data as input. These models are able to make accurate estimates of the cell composition of bulk RNA-Seq samples from the same context using the advances provided by Deep Learning and the meaningful information provided by scRNA-Seq data. See Torroja and Sanchez-Cabo (2019) <doi:10.3389/fgene.2019.00978> for more details.

Diego Ma<c3><b1>anes

digitalDLSorteR

Deconvolution of Bulk RNA-Seq Data Based on Deep Learning

Diego Mañanes

Carlos Torroja

Fatima Sanchez-Cabo

loadDeconvData function

<dl><dt>object</dt>
<dd><code>DigitalDLSorter</code> object with
<code>trained.model</code> slot.</dd>
<dt>data</dt>
<dd>File path where the data is stored or a
<code>SummarizedExperiment</code> object.</dd>
<dt>name.data</dt>
<dd>Name under which the data is stored in the
<code>DigitalDLSorter</code> object. When <code>data</code> is a file
path and <code>name.data</code> is not provided, the base name of file will be
used.</dd></dl>

Arguments

Load data to be deconvoluted into a DigitalDLSorter object — loadDeconvData

<dl>

<dt>object</dt>
<dd><code>DigitalDLSorter</code> object with
<code>trained.model</code> slot.</dd>


<dt>data</dt>
<dd>File path where the data is stored or a
<code>SummarizedExperiment</code> object.</dd>


<dt>name.data</dt>
<dd>Name under which the data is stored in the
<code>DigitalDLSorter</code> object. When <code>data</code> is a file
path and <code>name.data</code> is not provided, the base name of file will be
used.</dd>

</dl>

loadDeconvData: Load data to be deconvoluted into a DigitalDLSorter object

Description

Usage

Value

Arguments

See Also