process_matrix

Function to apply a procedure to pre-process the gene expression data saved in matrices. This pre-processing step 
is required to allow a fair analysis of the results obtained from the SLFM model.

Set of tools to find coherent patterns in gene expression (microarray) data using a Bayesian Sparse Latent Factor Model (SLFM) <DOI:10.1007/978-3-319-12454-4_15>. Considerable effort has been put to build a fast and memory efficient package, which makes this proposal an interesting and computationally convenient alternative to study patterns of gene expressions exhibited in matrices. The package contains the implementation of two versions of the model based on different mixture priors for the loadings: one relies on a degenerate component at zero and the other uses a small variance normal distribution for the spike part of the mixture.

Vinicius Mayrink

slfm

Fitting a Bayesian Sparse Latent Factor Model in Gene Expression
Analysis

Joao Duarte

process_matrix function

<dl><dt>path</dt>
<dd>path to the directory containing the set of matrices to be pre-processed.</dd>
<dt>output_path</dt>
<dd>path to the directory intended to acommodate the saved pre-processed matrices.</dd>
<dt>sample_size</dt>
<dd>number of matrices to be used on the principal component analysis.</dd></dl>

Arguments

process_matrix — process_matrix

<dl>

<dt>path</dt>
<dd>path to the directory containing the set of matrices to be pre-processed.</dd>


<dt>output_path</dt>
<dd>path to the directory intended to acommodate the saved pre-processed matrices.</dd>


<dt>sample_size</dt>
<dd>number of matrices to be used on the principal component analysis.</dd>

</dl>

process_matrix: process_matrix

Description

Usage

Arguments

See Also