fc2Calc

This is an internal function for using a C code to
calculate fold changes using pairwise comparison of samples.

A fold change rank based method is presented to search for genes with
changing expression and to detect recurrent chromosomal copy number
aberrations. This method may be useful for high-throughput biological
data (micro-array, sequencing, ...).
Probabilities are associated with genes or probes in the data set and
there is no problem of multiple tests when using this method. For
array-based comparative genomic hybridization data, segmentation
results are obtained by merging the significant probes detected.

Doulaye Dembele

fcros

A Method to Search for Differentially Expressed Genes and to
Detect Recurrent Chromosomal Copy Number Aberrations

fc2Calc function

<dl> <dt>rvect</dt>
<dd>Vector containing the full or reduced matrix with the pairwise
 comparison of samples results</dd> <dt>n</dt>
<dd>Number of genes or probes in the dataset</dd> <dt>m</dt>
<dd>Number of columns of the full or reduced matrix of pairwise 
 comparison of samples results</dd> <dt>idx</dt>
<dd>Indexes of the columns to keep in the pairwise comparison
 of samples</dd> <dt>m2</dt>
<dd>Number of columns in the full or reduced matrix of 
 comparison of samples</dd></dl>

Arguments

Author

Calculation of fold change using pairwise comparison values — fc2Calc

<dl>

 <dt>rvect</dt>
<dd>Vector containing the full or reduced matrix with the pairwise
 comparison of samples results</dd>

 <dt>n</dt>
<dd>Number of genes or probes in the dataset</dd>

 <dt>m</dt>
<dd>Number of columns of the full or reduced matrix of pairwise 
 comparison of samples results</dd>

 <dt>idx</dt>
<dd>Indexes of the columns to keep in the pairwise comparison
 of samples</dd>

 <dt>m2</dt>
<dd>Number of columns in the full or reduced matrix of 
 comparison of samples</dd>

</dl>

fc2Calc: Calculation of fold change using pairwise comparison values

Description

Usage

Arguments

Author

References

Examples