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PairCorrelation

Calculates correlations for the row pairs.

Version 1.1
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Categories Analysis
Authors Marko Laakso (Marko.Laakso@Helsinki.FI)
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Source files component.xml PairCorrelation.r
Usage Example with default values

Inputs

Name Type Mandatory Description
data Matrix Mandatory Rows of entities and columns of experiments / replicates
pairs CSV Mandatory A table with two columns providing pairs of row identifiers for the data matrix

Outputs

Name Type Description
stats CSV Correlations of the pairs
skipped IDList These entities were skipped due the lack of data

Parameters

Name Type Default Description
method string "cor-spearman" Type of the correlation test: "cor-pearson" or "cor-spearman".
pLimit float 0.05 Correlations with a p-value less or equal to this are accepted
pairCol1 string "" Column name for the first identifier in the pairs input. An empty string refers to the first column.
pairCol2 string "" Column name for the second identifier in the pairs input. An empty string refers to the second column.
rDownMax float -0.5 Correlations less or equal to this limit are accepted
rUpMin float 0.5 Correlations greater or equal to this limit are accepted

Test cases

Test case Parameters IN
data
IN
pairs
OUT
stats
OUT
skipped
case1 properties data pairs stats skipped

pLimit = 0.8


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